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(v0.7.1.9087) small fix

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dr. M.S. (Matthijs) Berends 2019-09-23 23:09:50 +02:00
parent 38336d7408
commit 04cd0d25db
9 changed files with 13 additions and 12 deletions
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2
DESCRIPTION
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@ -1,5 +1,5 @@
Package: AMR Package: AMR
Version: 0.7.1.9086 Version: 0.7.1.9087
Date: 2019-09-23 Date: 2019-09-23
Title: Antimicrobial Resistance Analysis Title: Antimicrobial Resistance Analysis
Authors@R: c( Authors@R: c(

2
NEWS.md
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@ -1,4 +1,4 @@
# AMR 0.7.1.9086 # AMR 0.7.1.9087
<small>Last updated: 23-Sep-2019</small> <small>Last updated: 23-Sep-2019</small>
### Breaking ### Breaking

3
R/mo_history.R
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@ -31,9 +31,10 @@ set_mo_history <- function(x, mo, uncertainty_level, force = FALSE, disable = FA
mo <- mo[!x %in% microorganisms.codes$code & !x %in% microorganisms.translation$mo_old] mo <- mo[!x %in% microorganisms.codes$code & !x %in% microorganisms.translation$mo_old]
x <- x[!x %in% microorganisms.codes$code & !x %in% microorganisms.translation$mo_old] x <- x[!x %in% microorganisms.codes$code & !x %in% microorganisms.translation$mo_old]
warning_new_write <- FALSE
if (base::interactive() | force == TRUE) { if (base::interactive() | force == TRUE) {
mo_hist <- read_mo_history(uncertainty_level = uncertainty_level, force = force) mo_hist <- read_mo_history(uncertainty_level = uncertainty_level, force = force)
warning_new_write <- FALSE
df <- data.frame(x, mo, stringsAsFactors = FALSE) %>% df <- data.frame(x, mo, stringsAsFactors = FALSE) %>%
distinct(x, .keep_all = TRUE) %>% distinct(x, .keep_all = TRUE) %>%
filter(!is.na(x) & !is.na(mo)) filter(!is.na(x) & !is.na(mo))

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docs/LICENSE-text.html
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@ -78,7 +78,7 @@
</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">0.7.1.9086</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9087</span>
</span> </span>
</div> </div>

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docs/articles/index.html
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@ -78,7 +78,7 @@
</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">0.7.1.9086</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9087</span>
</span> </span>
</div> </div>

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docs/authors.html
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@ -78,7 +78,7 @@
</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">0.7.1.9086</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9087</span>
</span> </span>
</div> </div>

2
docs/index.html
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@ -42,7 +42,7 @@
</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">0.7.1.9086</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9087</span>
</span> </span>
</div> </div>

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docs/news/index.html
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@ -78,7 +78,7 @@
</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">0.7.1.9086</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9087</span>
</span> </span>
</div> </div>
@ -225,9 +225,9 @@
</div> </div>
<div id="amr-0-7-1-9086" class="section level1"> <div id="amr-0-7-1-9087" class="section level1">
<h1 class="page-header"> <h1 class="page-header">
<a href="#amr-0-7-1-9086" class="anchor"></a>AMR 0.7.1.9086<small> Unreleased </small> <a href="#amr-0-7-1-9087" class="anchor"></a>AMR 0.7.1.9087<small> Unreleased </small>
</h1> </h1>
<p><small>Last updated: 23-Sep-2019</small></p> <p><small>Last updated: 23-Sep-2019</small></p>
<div id="breaking" class="section level3"> <div id="breaking" class="section level3">
@ -1280,7 +1280,7 @@ Using <code><a href="../reference/as.mo.html">as.mo(..., allow_uncertain = 3)</a
<div id="tocnav"> <div id="tocnav">
<h2>Contents</h2> <h2>Contents</h2>
<ul class="nav nav-pills nav-stacked"> <ul class="nav nav-pills nav-stacked">
<li><a href="#amr-0-7-1-9086">0.7.1.9086</a></li> <li><a href="#amr-0-7-1-9087">0.7.1.9087</a></li>
<li><a href="#amr-0-7-1">0.7.1</a></li> <li><a href="#amr-0-7-1">0.7.1</a></li>
<li><a href="#amr-0-7-0">0.7.0</a></li> <li><a href="#amr-0-7-0">0.7.0</a></li>
<li><a href="#amr-0-6-1">0.6.1</a></li> <li><a href="#amr-0-6-1">0.6.1</a></li>

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docs/reference/index.html
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@ -78,7 +78,7 @@
</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">0.7.1.9086</span> <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9087</span>
</span> </span>
</div> </div>