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authorJohannes Ranke <jranke@uni-bremen.de>2020-10-08 09:31:35 +0200
committerJohannes Ranke <jranke@uni-bremen.de>2020-10-08 09:31:35 +0200
commitbc3825ae2d12c18ea3d3caf17eb23c93fef180b8 (patch)
tree112e70a29db2fb35dd624af20f4d400c579b0283 /docs/dev/reference/parms.html
parentc7635af214729d2dc15dd8fbee2ebe6bc64493a4 (diff)
Fix issues for release
Diffstat (limited to 'docs/dev/reference/parms.html')
-rw-r--r--docs/dev/reference/parms.html43
1 files changed, 21 insertions, 22 deletions
diff --git a/docs/dev/reference/parms.html b/docs/dev/reference/parms.html
index a50ca352..bd35d3c1 100644
--- a/docs/dev/reference/parms.html
+++ b/docs/dev/reference/parms.html
@@ -188,23 +188,22 @@ such matrices is returned.</p>
<h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
<pre class="examples"><div class='input'><span class='co'># mkinfit objects</span>
<span class='no'>fit</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span>(<span class='st'>"SFO"</span>, <span class='no'>FOCUS_2006_C</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
-<span class='fu'>parms</span>(<span class='no'>fit</span>)</div><div class='output co'>#&gt; parent_0 k_parent_sink sigma
-#&gt; 82.4921598 0.3060633 4.6730124 </div><div class='input'><span class='fu'>parms</span>(<span class='no'>fit</span>, <span class='kw'>transformed</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><div class='output co'>#&gt; parent_0 log_k_parent_sink sigma
-#&gt; 82.492160 -1.183963 4.673012 </div><div class='input'>
+<span class='fu'>parms</span>(<span class='no'>fit</span>)</div><div class='output co'>#&gt; parent_0 k_parent sigma
+#&gt; 82.4921598 0.3060633 4.6730124 </div><div class='input'><span class='fu'>parms</span>(<span class='no'>fit</span>, <span class='kw'>transformed</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><div class='output co'>#&gt; parent_0 log_k_parent sigma
+#&gt; 82.492160 -1.183963 4.673012 </div><div class='input'>
<span class='co'># mmkin objects</span>
<span class='no'>ds</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/r/base/lapply.html'>lapply</a></span>(<span class='no'>experimental_data_for_UBA_2019</span>[<span class='fl'>6</span>:<span class='fl'>10</span>],
<span class='kw'>function</span>(<span class='no'>x</span>) <span class='fu'><a href='https://rdrr.io/r/base/subset.html'>subset</a></span>(<span class='no'>x</span>$<span class='no'>data</span>[<span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span>(<span class='st'>"name"</span>, <span class='st'>"time"</span>, <span class='st'>"value"</span>)]))
<span class='fu'><a href='https://rdrr.io/r/base/names.html'>names</a></span>(<span class='no'>ds</span>) <span class='kw'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/r/base/paste.html'>paste</a></span>(<span class='st'>"Dataset"</span>, <span class='fl'>6</span>:<span class='fl'>10</span>)
<span class='co'># \dontrun{</span>
-<span class='no'>fits</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mmkin.html'>mmkin</a></span>(<span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span>(<span class='st'>"SFO"</span>, <span class='st'>"FOMC"</span>, <span class='st'>"DFOP"</span>), <span class='no'>ds</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>cores</span> <span class='kw'>=</span> <span class='fl'>1</span>)
-<span class='fu'>parms</span>(<span class='no'>fits</span>[<span class='st'>"SFO"</span>, ])</div><div class='output co'>#&gt; Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
-#&gt; parent_0 88.52275400 82.666781678 86.8547308 91.7779306 82.14809450
-#&gt; k_parent_sink 0.05794659 0.009647805 0.2102974 0.1232258 0.00720421
-#&gt; sigma 5.15274487 7.040168584 3.6769645 6.4669234 6.50457673</div><div class='input'><span class='fu'>parms</span>(<span class='no'>fits</span>[, <span class='fl'>2</span>])</div><div class='output co'>#&gt; $SFO
-#&gt; Dataset 7
-#&gt; parent_0 82.666781678
-#&gt; k_parent_sink 0.009647805
-#&gt; sigma 7.040168584
+<span class='no'>fits</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mmkin.html'>mmkin</a></span>(<span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span>(<span class='st'>"SFO"</span>, <span class='st'>"FOMC"</span>, <span class='st'>"DFOP"</span>), <span class='no'>ds</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>cores</span> <span class='kw'>=</span> <span class='fl'>1</span>)</div><div class='output co'>#&gt; <span class='warning'>Warning: Shapiro-Wilk test for standardized residuals: p = 0.0195</span></div><div class='output co'>#&gt; <span class='warning'>Warning: Shapiro-Wilk test for standardized residuals: p = 0.00408</span></div><div class='output co'>#&gt; <span class='warning'>Warning: Shapiro-Wilk test for standardized residuals: p = 0.0492</span></div><div class='output co'>#&gt; <span class='warning'>Warning: Shapiro-Wilk test for standardized residuals: p = 0.00985</span></div><div class='output co'>#&gt; <span class='warning'>Warning: Shapiro-Wilk test for standardized residuals: p = 0.00815</span></div><div class='output co'>#&gt; <span class='warning'>Warning: Shapiro-Wilk test for standardized residuals: p = 0.011</span></div><div class='input'><span class='fu'>parms</span>(<span class='no'>fits</span>[<span class='st'>"SFO"</span>, ])</div><div class='output co'>#&gt; Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
+#&gt; parent_0 88.52275400 82.666781678 86.8547308 91.7779306 82.14809450
+#&gt; k_parent 0.05794659 0.009647805 0.2102974 0.1232258 0.00720421
+#&gt; sigma 5.15274487 7.040168584 3.6769645 6.4669234 6.50457673</div><div class='input'><span class='fu'>parms</span>(<span class='no'>fits</span>[, <span class='fl'>2</span>])</div><div class='output co'>#&gt; $SFO
+#&gt; Dataset 7
+#&gt; parent_0 82.666781678
+#&gt; k_parent 0.009647805
+#&gt; sigma 7.040168584
#&gt;
#&gt; $FOMC
#&gt; Dataset 7
@@ -221,10 +220,10 @@ such matrices is returned.</p>
#&gt; g 0.526942415
#&gt; sigma 2.221302196
#&gt; </div><div class='input'><span class='fu'>parms</span>(<span class='no'>fits</span>)</div><div class='output co'>#&gt; $SFO
-#&gt; Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
-#&gt; parent_0 88.52275400 82.666781678 86.8547308 91.7779306 82.14809450
-#&gt; k_parent_sink 0.05794659 0.009647805 0.2102974 0.1232258 0.00720421
-#&gt; sigma 5.15274487 7.040168584 3.6769645 6.4669234 6.50457673
+#&gt; Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
+#&gt; parent_0 88.52275400 82.666781678 86.8547308 91.7779306 82.14809450
+#&gt; k_parent 0.05794659 0.009647805 0.2102974 0.1232258 0.00720421
+#&gt; sigma 5.15274487 7.040168584 3.6769645 6.4669234 6.50457673
#&gt;
#&gt; $FOMC
#&gt; Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
@@ -241,15 +240,15 @@ such matrices is returned.</p>
#&gt; g 0.44845068 0.526942415 0.66091965 0.65322767 0.342652880
#&gt; sigma 1.35690468 2.221302196 1.34169076 2.87159846 1.942067831
#&gt; </div><div class='input'><span class='fu'>parms</span>(<span class='no'>fits</span>, <span class='kw'>transformed</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><div class='output co'>#&gt; $SFO
-#&gt; Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
-#&gt; parent_0 88.522754 82.666782 86.854731 91.777931 82.148094
-#&gt; log_k_parent_sink -2.848234 -4.641025 -1.559232 -2.093737 -4.933090
-#&gt; sigma 5.152745 7.040169 3.676964 6.466923 6.504577
+#&gt; Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
+#&gt; parent_0 88.522754 82.666782 86.854731 91.777931 82.148094
+#&gt; log_k_parent -2.848234 -4.641025 -1.559232 -2.093737 -4.933090
+#&gt; sigma 5.152745 7.040169 3.676964 6.466923 6.504577
#&gt;
#&gt; $FOMC
#&gt; Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
-#&gt; parent_0 95.5585751 92.6837649 90.7197870 98.38393896 94.848146
-#&gt; log_alpha 0.2916741 -0.6996015 0.4941466 0.07181817 -1.271085
+#&gt; parent_0 95.5585751 92.6837649 90.7197870 98.38393897 94.848146
+#&gt; log_alpha 0.2916741 -0.6996015 0.4941466 0.07181816 -1.271085
#&gt; log_beta 2.5675088 2.6493701 1.6108523 1.48095106 1.932278
#&gt; sigma 1.8476712 1.9167519 1.0660627 3.14605557 1.622278
#&gt;

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