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authorJohannes Ranke <jranke@uni-bremen.de>2016-12-08 07:59:20 +0100
committerJohannes Ranke <jranke@uni-bremen.de>2016-12-08 07:59:20 +0100
commit8ec45cd4a89fe8493fd688a0d34e25f279ad95b7 (patch)
tree98b08f8af8ee9f5bb06b13e277dd9b929a45f6ad /docs/reference/mkinfit.html
parent0e57bfcf262a2b2a6a4c8148353cdaed7dc91c9c (diff)
Static documentation rebuilt by pkgdown::build_site(run_dont_run = TRUE)
Diffstat (limited to 'docs/reference/mkinfit.html')
-rw-r--r--docs/reference/mkinfit.html46
1 files changed, 23 insertions, 23 deletions
diff --git a/docs/reference/mkinfit.html b/docs/reference/mkinfit.html
index a992db8e..3dd701d3 100644
--- a/docs/reference/mkinfit.html
+++ b/docs/reference/mkinfit.html
@@ -374,15 +374,15 @@
<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: 3.3.2
-#&gt; Date of fit: Mon Nov 21 16:07:24 2016
-#&gt; Date of summary: Mon Nov 21 16:07:24 2016
+#&gt; Date of fit: Thu Dec 8 07:56:46 2016
+#&gt; Date of summary: Thu Dec 8 07:56:46 2016
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - (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 0.162 s
+#&gt; Fitted with method Port using 64 model solutions performed in 0.145 s
#&gt;
#&gt; Weighting: none
#&gt;
@@ -451,7 +451,7 @@
<span class='kw'>m1</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>))</div><div class='output co'>#&gt; <span class='message'>Successfully compiled differential equation model from auto-generated C code.</span></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; 1.368 1.244 1.029 </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; 1.172 1.232 0.904 </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 </div><div class='input'><span class='fu'><a href='endpoints.html'>endpoints</a></span>(<span class='no'>fit</span>)</div><div class='output co'>#&gt; $ff
#&gt; parent_sink parent_m1 m1_sink
#&gt; 0.485524 0.514476 1.000000
@@ -528,7 +528,7 @@
#&gt; Model cost at call 152 : 371.2134
#&gt; Optimisation by method Port successfully terminated.
#&gt; user system elapsed
-#&gt; 0.784 0.032 0.773 </div><div class='input'><span class='fu'>coef</span>(<span class='no'>fit.deSolve</span>)</div><div class='output co'>#&gt; parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink
+#&gt; 0.712 0.044 0.709 </div><div class='input'><span class='fu'>coef</span>(<span class='no'>fit.deSolve</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 </div><div class='input'><span class='fu'><a href='endpoints.html'>endpoints</a></span>(<span class='no'>fit.deSolve</span>)</div><div class='output co'>#&gt; $ff
#&gt; parent_sink parent_m1 m1_sink
#&gt; 0.485524 0.514476 1.000000
@@ -571,8 +571,8 @@
<span class='kw'>m1</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>), <span class='kw'>use_of_ff</span> <span class='kw'>=</span> <span class='st'>"max"</span>)</div><div class='output co'>#&gt; <span class='message'>Successfully compiled differential equation model from auto-generated C code.</span></div><div class='input'><span class='no'>f.noweight</span> <span class='kw'>&lt;-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFO_SFO.ff</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'>f.noweight</span>)</div><div class='output co'>#&gt; mkin version: 0.9.44.9000
#&gt; R version: 3.3.2
-#&gt; Date of fit: Mon Nov 21 16:07:35 2016
-#&gt; Date of summary: Mon Nov 21 16:07:35 2016
+#&gt; Date of fit: Thu Dec 8 07:56:57 2016
+#&gt; Date of summary: Thu Dec 8 07:56:57 2016
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - k_parent * parent
@@ -580,7 +580,7 @@
#&gt;
#&gt; Model predictions using solution type deSolve
#&gt;
-#&gt; Fitted with method Port using 185 model solutions performed in 0.808 s
+#&gt; Fitted with method Port using 185 model solutions performed in 0.77 s
#&gt;
#&gt; Weighting: none
#&gt;
@@ -692,8 +692,8 @@
#&gt; 120 m1 33.31 2.879e+01 4.520e+00</div><div class='input'><span class='no'>f.irls</span> <span class='kw'>&lt;-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFO_SFO.ff</span>, <span class='no'>FOCUS_2006_D</span>, <span class='kw'>reweight.method</span> <span class='kw'>=</span> <span class='st'>"obs"</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
<span class='fu'>summary</span>(<span class='no'>f.irls</span>)</div><div class='output co'>#&gt; mkin version: 0.9.44.9000
#&gt; R version: 3.3.2
-#&gt; Date of fit: Mon Nov 21 16:07:37 2016
-#&gt; Date of summary: Mon Nov 21 16:07:37 2016
+#&gt; Date of fit: Thu Dec 8 07:56:59 2016
+#&gt; Date of summary: Thu Dec 8 07:56:59 2016
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - k_parent * parent
@@ -701,7 +701,7 @@
#&gt;
#&gt; Model predictions using solution type deSolve
#&gt;
-#&gt; Fitted with method Port using 486 model solutions performed in 2.071 s
+#&gt; Fitted with method Port using 486 model solutions performed in 2.019 s
#&gt;
#&gt; Weighting: none then iterative reweighting method obs
#&gt;
@@ -813,8 +813,8 @@
#&gt; 120 m1 33.31 2.881e+01 4.501e+00 2.722</div><div class='input'><span class='no'>f.w.mean</span> <span class='kw'>&lt;-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFO_SFO.ff</span>, <span class='no'>FOCUS_2006_D</span>, <span class='kw'>weight</span> <span class='kw'>=</span> <span class='st'>"mean"</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
<span class='fu'>summary</span>(<span class='no'>f.w.mean</span>)</div><div class='output co'>#&gt; mkin version: 0.9.44.9000
#&gt; R version: 3.3.2
-#&gt; Date of fit: Mon Nov 21 16:07:38 2016
-#&gt; Date of summary: Mon Nov 21 16:07:38 2016
+#&gt; Date of fit: Thu Dec 8 07:57:00 2016
+#&gt; Date of summary: Thu Dec 8 07:57:00 2016
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - k_parent * parent
@@ -822,7 +822,7 @@
#&gt;
#&gt; Model predictions using solution type deSolve
#&gt;
-#&gt; Fitted with method Port using 155 model solutions performed in 0.645 s
+#&gt; Fitted with method Port using 155 model solutions performed in 0.65 s
#&gt;
#&gt; Weighting: mean
#&gt;
@@ -935,8 +935,8 @@
<span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
<span class='fu'>summary</span>(<span class='no'>f.w.value</span>)</div><div class='output co'>#&gt; mkin version: 0.9.44.9000
#&gt; R version: 3.3.2
-#&gt; Date of fit: Mon Nov 21 16:07:39 2016
-#&gt; Date of summary: Mon Nov 21 16:07:39 2016
+#&gt; Date of fit: Thu Dec 8 07:57:01 2016
+#&gt; Date of summary: Thu Dec 8 07:57:01 2016
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - k_parent * parent
@@ -944,7 +944,7 @@
#&gt;
#&gt; Model predictions using solution type deSolve
#&gt;
-#&gt; Fitted with method Port using 174 model solutions performed in 0.724 s
+#&gt; Fitted with method Port using 174 model solutions performed in 0.713 s
#&gt;
#&gt; Weighting: manual
#&gt;
@@ -1057,8 +1057,8 @@
<span class='no'>f.w.man</span> <span class='kw'>&lt;-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFO_SFO.ff</span>, <span class='no'>dw</span>, <span class='kw'>err</span> <span class='kw'>=</span> <span class='st'>"err.man"</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
<span class='fu'>summary</span>(<span class='no'>f.w.man</span>)</div><div class='output co'>#&gt; mkin version: 0.9.44.9000
#&gt; R version: 3.3.2
-#&gt; Date of fit: Mon Nov 21 16:07:40 2016
-#&gt; Date of summary: Mon Nov 21 16:07:40 2016
+#&gt; Date of fit: Thu Dec 8 07:57:02 2016
+#&gt; Date of summary: Thu Dec 8 07:57:02 2016
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - k_parent * parent
@@ -1066,7 +1066,7 @@
#&gt;
#&gt; Model predictions using solution type deSolve
#&gt;
-#&gt; Fitted with method Port using 316 model solutions performed in 1.306 s
+#&gt; Fitted with method Port using 316 model solutions performed in 1.322 s
#&gt;
#&gt; Weighting: manual
#&gt;
@@ -1179,8 +1179,8 @@
<span class='kw'>reweight.method</span> <span class='kw'>=</span> <span class='st'>"obs"</span>)
<span class='fu'>summary</span>(<span class='no'>f.w.man.irls</span>)</div><div class='output co'>#&gt; mkin version: 0.9.44.9000
#&gt; R version: 3.3.2
-#&gt; Date of fit: Mon Nov 21 16:07:43 2016
-#&gt; Date of summary: Mon Nov 21 16:07:43 2016
+#&gt; Date of fit: Thu Dec 8 07:57:05 2016
+#&gt; Date of summary: Thu Dec 8 07:57:05 2016
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - k_parent * parent
@@ -1188,7 +1188,7 @@
#&gt;
#&gt; Model predictions using solution type deSolve
#&gt;
-#&gt; Fitted with method Port using 648 model solutions performed in 2.758 s
+#&gt; Fitted with method Port using 648 model solutions performed in 2.818 s
#&gt;
#&gt; Weighting: manual then iterative reweighting method obs
#&gt;

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