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(v1.4.0.9057) GH actions update
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9
.github/workflows/check.yaml
vendored
9
.github/workflows/check.yaml
vendored
@ -117,9 +117,8 @@ jobs:
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brew install mariadb-connector-c
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- name: Install dependencies
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if: always()
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run: |
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utils::install.packages(strsplit(utils::packageDescription("AMR")$Suggests, ",\n")[[1]])
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utils::update.packages(ask = FALSE)
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shell: Rscript {0}
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- name: Session info
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@ -151,10 +150,14 @@ jobs:
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if: always()
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run: find check -name 'testthat.Rout*' -exec cat '{}' \; || true
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shell: bash
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- name: Install packages to check for new deps
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run: |
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R CMD INSTALL data-raw/AMR_*.tar.gz
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- name: Upload check results
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if: failure()
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uses: actions/upload-artifact@master
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with:
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name: ${{ runner.os }}-r${{ matrix.config.r }}-results
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name: ${{ matrix.config.os }}-r${{ matrix.config.r }}-results
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path: check
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@ -1,6 +1,6 @@
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Package: AMR
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Version: 1.4.0.9056
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Date: 2021-01-03
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Version: 1.4.0.9057
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Date: 2021-01-04
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Title: Antimicrobial Resistance Analysis
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Authors@R: c(
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person(role = c("aut", "cre"),
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4
NEWS.md
4
NEWS.md
@ -1,5 +1,5 @@
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# AMR 1.4.0.9056
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## <small>Last updated: 3 January 2021</small>
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# AMR 1.4.0.9057
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## <small>Last updated: 4 January 2021</small>
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### New
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* Functions `get_episode()` and `is_new_episode()` to determine (patient) episodes which are not necessarily based on microorganisms. The `get_episode()` function returns the index number of the episode per group, while the `is_new_episode()` function returns values `TRUE`/`FALSE` to indicate whether an item in a vector is the start of a new episode. They also support `dplyr`s grouping (i.e. using `group_by()`):
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```r
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@ -81,7 +81,7 @@
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</button>
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<span class="navbar-brand">
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<a class="navbar-link" href="https://msberends.github.io/AMR//index.html">AMR (for R)</a>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9056</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9057</span>
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</span>
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</div>
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@ -81,7 +81,7 @@
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</button>
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<span class="navbar-brand">
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<a class="navbar-link" href="index.html">AMR (for R)</a>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9056</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9057</span>
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</span>
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</div>
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@ -81,7 +81,7 @@
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</button>
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<span class="navbar-brand">
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<a class="navbar-link" href="../index.html">AMR (for R)</a>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9056</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9057</span>
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</span>
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</div>
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@ -81,7 +81,7 @@
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</button>
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<span class="navbar-brand">
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<a class="navbar-link" href="index.html">AMR (for R)</a>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9056</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9057</span>
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</span>
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</div>
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@ -43,7 +43,7 @@
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</button>
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<span class="navbar-brand">
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<a class="navbar-link" href="index.html">AMR (for R)</a>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9056</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9057</span>
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</span>
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</div>
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@ -81,7 +81,7 @@
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</button>
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<span class="navbar-brand">
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<a class="navbar-link" href="../index.html">AMR (for R)</a>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9056</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9057</span>
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</span>
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</div>
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@ -236,13 +236,13 @@
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<small>Source: <a href='https://github.com/msberends/AMR/blob/master/NEWS.md'><code>NEWS.md</code></a></small>
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</div>
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<div id="amr-1409056" class="section level1">
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<h1 class="page-header" data-toc-text="1.4.0.9056">
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<a href="#amr-1409056" class="anchor"></a>AMR 1.4.0.9056<small> Unreleased </small>
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<div id="amr-1409057" class="section level1">
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<h1 class="page-header" data-toc-text="1.4.0.9057">
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<a href="#amr-1409057" class="anchor"></a>AMR 1.4.0.9057<small> Unreleased </small>
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</h1>
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<div id="last-updated-3-january-2021" class="section level2">
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<div id="last-updated-4-january-2021" class="section level2">
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<h2 class="hasAnchor">
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<a href="#last-updated-3-january-2021" class="anchor"></a><small>Last updated: 3 January 2021</small>
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<a href="#last-updated-4-january-2021" class="anchor"></a><small>Last updated: 4 January 2021</small>
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</h2>
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<div id="new" class="section level3">
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<h3 class="hasAnchor">
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datasets: datasets.html
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resistance_predict: resistance_predict.html
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welcome_to_AMR: welcome_to_AMR.html
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last_built: 2021-01-03T22:35Z
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last_built: 2021-01-04T08:49Z
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urls:
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reference: https://msberends.github.io/AMR//reference
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article: https://msberends.github.io/AMR//articles
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@ -81,7 +81,7 @@
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</button>
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<span class="navbar-brand">
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<a class="navbar-link" href="../index.html">AMR (for R)</a>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9056</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9057</span>
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</span>
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</div>
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</button>
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<span class="navbar-brand">
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<a class="navbar-link" href="index.html">AMR (for R)</a>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9056</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9057</span>
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</span>
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</div>
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