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authorJohannes Ranke <jranke@uni-bremen.de>2016-10-06 09:40:35 +0200
committerJohannes Ranke <jranke@uni-bremen.de>2016-10-06 09:40:35 +0200
commit7c62da1269e8910a210ba1917d4dc62d186d5606 (patch)
tree57da1e788f84fe95352ff66d22a9da56dc86f9c3 /docs/reference
parent38f9e15f0c972c1516ae737a2bca8d7789581bbd (diff)
Static documentation rebuilt by pkgdown::build_site()
Diffstat (limited to 'docs/reference')
-rw-r--r--docs/reference/Extract.mmkin.html20
-rw-r--r--docs/reference/mccall81_245T.html6
-rw-r--r--docs/reference/mkinfit.html8
-rw-r--r--docs/reference/mkinpredict.html4
-rw-r--r--docs/reference/summary.mkinfit.html6
-rw-r--r--docs/reference/transform_odeparms.html6
6 files changed, 25 insertions, 25 deletions
diff --git a/docs/reference/Extract.mmkin.html b/docs/reference/Extract.mmkin.html
index b811eb95..1802e260 100644
--- a/docs/reference/Extract.mmkin.html
+++ b/docs/reference/Extract.mmkin.html
@@ -192,7 +192,7 @@
#&gt;
#&gt; $time
#&gt; user system elapsed
-#&gt; 0.256 0.000 0.257
+#&gt; 0.256 0.000 0.256
#&gt;
#&gt; $mkinmod
#&gt; &lt;mkinmod&gt; model generated with
@@ -378,7 +378,7 @@
#&gt; }
#&gt; return(mC)
#&gt; }
-#&gt; &lt;environment: 0x27fc328&gt;
+#&gt; &lt;environment: 0x435ac28&gt;
#&gt;
#&gt; $cost_notrans
#&gt; function (P)
@@ -400,7 +400,7 @@
#&gt; scaleVar = scaleVar)
#&gt; return(mC)
#&gt; }
-#&gt; &lt;environment: 0x27fc328&gt;
+#&gt; &lt;environment: 0x435ac28&gt;
#&gt;
#&gt; $hessian_notrans
#&gt; parent_0 alpha beta
@@ -466,7 +466,7 @@
#&gt; 99.66619
#&gt;
#&gt; $date
-#&gt; [1] &quot;Thu Oct 6 09:17:52 2016&quot;
+#&gt; [1] &quot;Thu Oct 6 09:39:06 2016&quot;
#&gt;
#&gt; attr(,&quot;class&quot;)
#&gt; [1] &quot;mkinfit&quot; &quot;modFit&quot;
@@ -734,7 +734,7 @@
#&gt; }
#&gt; return(mC)
#&gt; }
-#&gt; &lt;environment: 0x2e966b0&gt;
+#&gt; &lt;environment: 0x4da08d0&gt;
#&gt;
#&gt; $cost_notrans
#&gt; function (P)
@@ -756,7 +756,7 @@
#&gt; scaleVar = scaleVar)
#&gt; return(mC)
#&gt; }
-#&gt; &lt;environment: 0x2e966b0&gt;
+#&gt; &lt;environment: 0x4da08d0&gt;
#&gt;
#&gt; $hessian_notrans
#&gt; parent_0 k_parent_sink
@@ -819,7 +819,7 @@
#&gt; 99.17407
#&gt;
#&gt; $date
-#&gt; [1] &quot;Thu Oct 6 09:17:51 2016&quot;
+#&gt; [1] &quot;Thu Oct 6 09:39:06 2016&quot;
#&gt;
#&gt; attr(,&quot;class&quot;)
#&gt; [1] &quot;mkinfit&quot; &quot;modFit&quot;
@@ -1083,7 +1083,7 @@
#&gt; }
#&gt; return(mC)
#&gt; }
-#&gt; &lt;environment: 0x2e966b0&gt;
+#&gt; &lt;environment: 0x4da08d0&gt;
#&gt;
#&gt; $cost_notrans
#&gt; function (P)
@@ -1105,7 +1105,7 @@
#&gt; scaleVar = scaleVar)
#&gt; return(mC)
#&gt; }
-#&gt; &lt;environment: 0x2e966b0&gt;
+#&gt; &lt;environment: 0x4da08d0&gt;
#&gt;
#&gt; $hessian_notrans
#&gt; parent_0 k_parent_sink
@@ -1168,7 +1168,7 @@
#&gt; 99.17407
#&gt;
#&gt; $date
-#&gt; [1] &quot;Thu Oct 6 09:17:51 2016&quot;
+#&gt; [1] &quot;Thu Oct 6 09:39:06 2016&quot;
#&gt;
#&gt; attr(,&quot;class&quot;)
#&gt; [1] &quot;mkinfit&quot; &quot;modFit&quot;
diff --git a/docs/reference/mccall81_245T.html b/docs/reference/mccall81_245T.html
index edfce55a..17e900a4 100644
--- a/docs/reference/mccall81_245T.html
+++ b/docs/reference/mccall81_245T.html
@@ -122,8 +122,8 @@
<span class='kw'>fixed_parms</span> <span class='kw'>=</span> <span class='st'>"k_phenol_sink"</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
<span class='fu'>summary</span>(<span class='no'>fit.2</span>, <span class='kw'>data</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>)</div><div class='output co'>#&gt; mkin version: 0.9.44.9000
#&gt; R version: 3.3.1
-#&gt; Date of fit: Thu Oct 6 09:17:57 2016
-#&gt; Date of summary: Thu Oct 6 09:17:57 2016
+#&gt; Date of fit: Thu Oct 6 09:39:12 2016
+#&gt; Date of summary: Thu Oct 6 09:39:12 2016
#&gt;
#&gt; Equations:
#&gt; d_T245 = - k_T245_sink * T245 - k_T245_phenol * T245
@@ -133,7 +133,7 @@
#&gt;
#&gt; Model predictions using solution type deSolve
#&gt;
-#&gt; Fitted with method Port using 246 model solutions performed in 1.508 s
+#&gt; Fitted with method Port using 246 model solutions performed in 1.544 s
#&gt;
#&gt; Weighting: none
#&gt;
diff --git a/docs/reference/mkinfit.html b/docs/reference/mkinfit.html
index d1441f8b..14c1b364 100644
--- a/docs/reference/mkinfit.html
+++ b/docs/reference/mkinfit.html
@@ -363,15 +363,15 @@
<span class='no'>fit</span> <span class='kw'>&lt;-</span> <span class='fu'>mkinfit</span>(<span class='st'>"FOMC"</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'>summary</span>(<span class='no'>fit</span>)</div><div class='output co'>#&gt; mkin version: 0.9.44.9000
#&gt; R version: 3.3.1
-#&gt; Date of fit: Thu Oct 6 09:17:59 2016
-#&gt; Date of summary: Thu Oct 6 09:17:59 2016
+#&gt; Date of fit: Thu Oct 6 09:39:14 2016
+#&gt; Date of summary: Thu Oct 6 09:39:14 2016
#&gt;
#&gt; Equations:
#&gt; d_parent = - (alpha/beta) * 1/((time/beta) + 1) * parent
#&gt;
#&gt; Model predictions using solution type analytical
#&gt;
-#&gt; Fitted with method Port using 64 model solutions performed in 0.153 s
+#&gt; Fitted with method Port using 64 model solutions performed in 0.16 s
#&gt;
#&gt; Weighting: none
#&gt;
@@ -441,7 +441,7 @@
<span class='kw'>m1</span> <span class='kw'>=</span> <span class='fu'>mkinsub</span>(<span class='st'>"SFO"</span>))</div><div class='output'><strong class='text-info'>Successfully compiled differential equation model from auto-generated C code.</strong></div><div class='input'><span class='co'># Fit the model to the FOCUS example dataset D using defaults</span>
<span class='fu'>print</span>(<span class='fu'>system.time</span>(<span class='no'>fit</span> <span class='kw'>&lt;-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFO_SFO</span>, <span class='no'>FOCUS_2006_D</span>,
<span class='kw'>solution_type</span> <span class='kw'>=</span> <span class='st'>"eigen"</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)))</div><div class='output co'>#&gt; user system elapsed
-#&gt; 1.252 1.176 0.914
+#&gt; 1.204 1.224 0.917
#&gt; </div><div class='input'><span class='fu'>coef</span>(<span class='no'>fit</span>)</div><div class='output co'>#&gt; parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink
#&gt; 99.59848 -3.03822 -2.98030 -5.24750
#&gt; </div><div class='input'><span class='fu'>endpoints</span>(<span class='no'>fit</span>)</div><div class='output co'>#&gt; $ff
diff --git a/docs/reference/mkinpredict.html b/docs/reference/mkinpredict.html
index 730792c1..b0899a3e 100644
--- a/docs/reference/mkinpredict.html
+++ b/docs/reference/mkinpredict.html
@@ -284,7 +284,7 @@
<span class='kw'>solution_type</span> <span class='kw'>=</span> <span class='st'>"eigen"</span>)[<span class='fl'>201</span>,]))</div><div class='output co'>#&gt; time parent m1
#&gt; 201 20 4.978707 27.46227
#&gt; </div><div class='output co'>#&gt; user system elapsed
-#&gt; 0.000 0.028 0.004
+#&gt; 0.008 0.024 0.004
#&gt; </div><div class='input'> <span class='fu'>system.time</span>(
<span class='fu'>print</span>(<span class='fu'>mkinpredict</span>(<span class='no'>SFO_SFO</span>, <span class='fu'>c</span>(<span class='kw'>k_parent_m1</span> <span class='kw'>=</span> <span class='fl'>0.05</span>, <span class='kw'>k_parent_sink</span> <span class='kw'>=</span> <span class='fl'>0.1</span>, <span class='kw'>k_m1_sink</span> <span class='kw'>=</span> <span class='fl'>0.01</span>),
<span class='fu'>c</span>(<span class='kw'>parent</span> <span class='kw'>=</span> <span class='fl'>100</span>, <span class='kw'>m1</span> <span class='kw'>=</span> <span class='fl'>0</span>), <span class='fu'>seq</span>(<span class='fl'>0</span>, <span class='fl'>20</span>, <span class='kw'>by</span> <span class='kw'>=</span> <span class='fl'>0.1</span>),
@@ -298,7 +298,7 @@
<span class='kw'>solution_type</span> <span class='kw'>=</span> <span class='st'>"deSolve"</span>, <span class='kw'>use_compiled</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>)[<span class='fl'>201</span>,]))</div><div class='output co'>#&gt; time parent m1
#&gt; 201 20 4.978707 27.46227
#&gt; </div><div class='output co'>#&gt; user system elapsed
-#&gt; 0.036 0.000 0.035
+#&gt; 0.032 0.000 0.033
#&gt; </div></pre>
</div>
<div class="col-md-3">
diff --git a/docs/reference/summary.mkinfit.html b/docs/reference/summary.mkinfit.html
index e0cdfe23..001852a5 100644
--- a/docs/reference/summary.mkinfit.html
+++ b/docs/reference/summary.mkinfit.html
@@ -142,15 +142,15 @@
<h2 id="examples">Examples</h2>
<pre class="examples"><div class='input'> <span class='fu'>summary</span>(<span class='fu'>mkinfit</span>(<span class='fu'>mkinmod</span>(<span class='kw'>parent</span> <span class='kw'>=</span> <span class='fu'>list</span>(<span class='kw'>type</span> <span class='kw'>=</span> <span class='st'>"SFO"</span>)), <span class='no'>FOCUS_2006_A</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>))</div><div class='output co'>#&gt; mkin version: 0.9.44.9000
#&gt; R version: 3.3.1
-#&gt; Date of fit: Thu Oct 6 09:18:07 2016
-#&gt; Date of summary: Thu Oct 6 09:18:07 2016
+#&gt; Date of fit: Thu Oct 6 09:39:22 2016
+#&gt; Date of summary: Thu Oct 6 09:39:22 2016
#&gt;
#&gt; Equations:
#&gt; d_parent = - k_parent_sink * parent
#&gt;
#&gt; Model predictions using solution type analytical
#&gt;
-#&gt; Fitted with method Port using 35 model solutions performed in 0.079 s
+#&gt; Fitted with method Port using 35 model solutions performed in 0.078 s
#&gt;
#&gt; Weighting: none
#&gt;
diff --git a/docs/reference/transform_odeparms.html b/docs/reference/transform_odeparms.html
index 3b8be856..2b736098 100644
--- a/docs/reference/transform_odeparms.html
+++ b/docs/reference/transform_odeparms.html
@@ -147,8 +147,8 @@
<span class='no'>fit</span> <span class='kw'>&lt;-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFO_SFO</span>, <span class='no'>FOCUS_2006_D</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
<span class='fu'>summary</span>(<span class='no'>fit</span>, <span class='kw'>data</span><span class='kw'>=</span><span class='fl'>FALSE</span>) <span class='co'># See transformed and backtransformed parameters</span></div><div class='output co'>#&gt; mkin version: 0.9.44.9000
#&gt; R version: 3.3.1
-#&gt; Date of fit: Thu Oct 6 09:18:08 2016
-#&gt; Date of summary: Thu Oct 6 09:18:08 2016
+#&gt; Date of fit: Thu Oct 6 09:39:23 2016
+#&gt; Date of summary: Thu Oct 6 09:39:23 2016
#&gt;
#&gt; Equations:
#&gt; d_parent = - k_parent_sink * parent - k_parent_m1 * parent
@@ -156,7 +156,7 @@
#&gt;
#&gt; Model predictions using solution type deSolve
#&gt;
-#&gt; Fitted with method Port using 153 model solutions performed in 0.636 s
+#&gt; Fitted with method Port using 153 model solutions performed in 0.63 s
#&gt;
#&gt; Weighting: none
#&gt;

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