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(v1.2.0.9040) conserve_capped_values for as.rsi()

new-mo-algorithm
parent
commit
de0f7b8950
  1. 2
      DESCRIPTION
  2. 2
      NEWS.md
  3. 1
      R/rsi.R
  4. 2
      docs/404.html
  5. 2
      docs/LICENSE-text.html
  6. 2
      docs/articles/index.html
  7. 2
      docs/authors.html
  8. 1
      docs/extra.js
  9. 2
      docs/index.html
  10. 8
      docs/news/index.html
  11. 2
      docs/pkgdown.yml
  12. 3
      docs/reference/as.rsi.html
  13. 2
      docs/reference/index.html
  14. 2
      docs/survey.html
  15. 1
      man/as.rsi.Rd
  16. 1
      pkgdown/extra.js

2
DESCRIPTION

@ -1,5 +1,5 @@ @@ -1,5 +1,5 @@
Package: AMR
Version: 1.2.0.9039
Version: 1.2.0.9040
Date: 2020-07-29
Title: Antimicrobial Resistance Analysis
Authors@R: c(

2
NEWS.md

@ -1,4 +1,4 @@ @@ -1,4 +1,4 @@
# AMR 1.2.0.9039
# AMR 1.2.0.9040
## <small>Last updated: 29 July 2020</small>
### New

1
R/rsi.R

@ -261,7 +261,6 @@ as.rsi.disk <- function(x, @@ -261,7 +261,6 @@ as.rsi.disk <- function(x,
ab = deparse(substitute(x)),
guideline = "EUCAST",
uti = FALSE,
conserve_capped_values = FALSE,
...) {
stop_if(missing(mo),
'No information was supplied about the microorganisms (missing parameter "mo"). See ?as.rsi.\n\n',

2
docs/404.html

@ -81,7 +81,7 @@ @@ -81,7 +81,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="https://msberends.github.io/AMR/index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.2.0.9039</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.2.0.9040</span>
</span>
</div>

2
docs/LICENSE-text.html

@ -81,7 +81,7 @@ @@ -81,7 +81,7 @@
</button>
<span class="navbar-brand">
<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">1.2.0.9039</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.2.0.9040</span>
</span>
</div>

2
docs/articles/index.html

@ -81,7 +81,7 @@ @@ -81,7 +81,7 @@
</button>
<span class="navbar-brand">
<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">1.2.0.9039</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.2.0.9040</span>
</span>
</div>

2
docs/authors.html

@ -81,7 +81,7 @@ @@ -81,7 +81,7 @@
</button>
<span class="navbar-brand">
<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">1.2.0.9039</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.2.0.9040</span>
</span>
</div>

1
docs/extra.js

@ -93,6 +93,7 @@ $(document).ready(function() { @@ -93,6 +93,7 @@ $(document).ready(function() {
$('.template-citation-authors h1').eq(0).text('How to cite');
$('.template-citation-authors h1').eq(1).text('All contributors');
$(".developers").html(doct_tit($(".developers").html()));
$(".developers a[href='authors.html']").text("All contributors...");
// Edit title of manual
$('.template-reference-index h1').text('Manual');

2
docs/index.html

@ -43,7 +43,7 @@ @@ -43,7 +43,7 @@
</button>
<span class="navbar-brand">
<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">1.2.0.9039</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.2.0.9040</span>
</span>
</div>

8
docs/news/index.html

@ -81,7 +81,7 @@ @@ -81,7 +81,7 @@
</button>
<span class="navbar-brand">
<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">1.2.0.9039</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.2.0.9040</span>
</span>
</div>
@ -229,9 +229,9 @@ @@ -229,9 +229,9 @@
<small>Source: <a href='https://github.com/msberends/AMR/blob/master/NEWS.md'><code>NEWS.md</code></a></small>
</div>
<div id="amr-1209039" class="section level1">
<h1 class="page-header" data-toc-text="1.2.0.9039">
<a href="#amr-1209039" class="anchor"></a>AMR 1.2.0.9039<small> Unreleased </small>
<div id="amr-1209040" class="section level1">
<h1 class="page-header" data-toc-text="1.2.0.9040">
<a href="#amr-1209040" class="anchor"></a>AMR 1.2.0.9040<small> Unreleased </small>
</h1>
<div id="last-updated-29-july-2020" class="section level2">
<h2 class="hasAnchor">

2
docs/pkgdown.yml

@ -10,7 +10,7 @@ articles: @@ -10,7 +10,7 @@ articles:
WHONET: WHONET.html
benchmarks: benchmarks.html
resistance_predict: resistance_predict.html
last_built: 2020-07-29T09:46Z
last_built: 2020-07-29T10:44Z
urls:
reference: https://msberends.github.io/AMR/reference
article: https://msberends.github.io/AMR/articles

3
docs/reference/as.rsi.html

@ -82,7 +82,7 @@ @@ -82,7 +82,7 @@
</button>
<span class="navbar-brand">
<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">1.2.0.9039</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.2.0.9040</span>
</span>
</div>
@ -255,7 +255,6 @@ @@ -255,7 +255,6 @@
<span class='kw'>ab</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/deparse.html'>deparse</a></span>(<span class='fu'><a href='https://rdrr.io/r/base/substitute.html'>substitute</a></span>(<span class='no'>x</span>)),
<span class='kw'>guideline</span> <span class='kw'>=</span> <span class='st'>"EUCAST"</span>,
<span class='kw'>uti</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>,
<span class='kw'>conserve_capped_values</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>,
<span class='no'>...</span>
)

2
docs/reference/index.html

@ -81,7 +81,7 @@ @@ -81,7 +81,7 @@
</button>
<span class="navbar-brand">
<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">1.2.0.9039</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.2.0.9040</span>
</span>
</div>

2
docs/survey.html

@ -81,7 +81,7 @@ @@ -81,7 +81,7 @@
</button>
<span class="navbar-brand">
<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">1.2.0.9039</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.2.0.9040</span>
</span>
</div>

1
man/as.rsi.Rd

@ -28,7 +28,6 @@ as.rsi(x, ...) @@ -28,7 +28,6 @@ as.rsi(x, ...)
ab = deparse(substitute(x)),
guideline = "EUCAST",
uti = FALSE,
conserve_capped_values = FALSE,
...
)

1
pkgdown/extra.js

@ -93,6 +93,7 @@ $(document).ready(function() { @@ -93,6 +93,7 @@ $(document).ready(function() {
$('.template-citation-authors h1').eq(0).text('How to cite');
$('.template-citation-authors h1').eq(1).text('All contributors');
$(".developers").html(doct_tit($(".developers").html()));
$(".developers a[href='authors.html']").text("All contributors...");
// Edit title of manual
$('.template-reference-index h1').text('Manual');

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