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-rw-r--r--docs/reference/mccall81_245T.html45
1 files changed, 30 insertions, 15 deletions
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@@ -160,14 +160,22 @@
<h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
<pre class="examples"><div class='input'> <span class='no'>SFO_SFO_SFO</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mkinmod.html'>mkinmod</a></span>(<span class='kw'>T245</span> <span class='kw'>=</span> <span class='fu'><a href='https://www.rdocumentation.org/packages/base/topics/list'>list</a></span>(<span class='kw'>type</span> <span class='kw'>=</span> <span class='st'>"SFO"</span>, <span class='kw'>to</span> <span class='kw'>=</span> <span class='st'>"phenol"</span>),
<span class='kw'>phenol</span> <span class='kw'>=</span> <span class='fu'><a href='https://www.rdocumentation.org/packages/base/topics/list'>list</a></span>(<span class='kw'>type</span> <span class='kw'>=</span> <span class='st'>"SFO"</span>, <span class='kw'>to</span> <span class='kw'>=</span> <span class='st'>"anisole"</span>),
- <span class='kw'>anisole</span> <span class='kw'>=</span> <span class='fu'><a href='https://www.rdocumentation.org/packages/base/topics/list'>list</a></span>(<span class='kw'>type</span> <span class='kw'>=</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'> </div><div class='input'> <span class='no'>fit.1</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span>(<span class='no'>SFO_SFO_SFO</span>, <span class='fu'><a href='https://www.rdocumentation.org/packages/base/topics/subset'>subset</a></span>(<span class='no'>mccall81_245T</span>, <span class='no'>soil</span> <span class='kw'>==</span> <span class='st'>"Commerce"</span>), <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><div class='output co'>#&gt; <span class='warning'>Warning: Observations with value of zero were removed from the data</span></div><div class='input'> <span class='fu'><a href='https://www.rdocumentation.org/packages/base/topics/summary'>summary</a></span>(<span class='no'>fit.1</span>)$<span class='no'>bpar</span></div><div class='output co'>#&gt; <span class='warning'>Warning: Could not calculate correlation; no covariance matrix</span></div><div class='output co'>#&gt; Estimate se_notrans t value Pr(&gt;t) Lower Upper
-#&gt; T245_0 1.038550e+02 NA NA NA NA NA
-#&gt; k_T245_sink 1.636106e-02 NA NA NA NA NA
-#&gt; k_T245_phenol 2.700936e-02 NA NA NA NA NA
-#&gt; k_phenol_sink 1.788604e-10 NA NA NA NA NA
-#&gt; k_phenol_anisole 4.050581e-01 NA NA NA NA NA
-#&gt; k_anisole_sink 6.678742e-03 NA NA NA NA NA
-#&gt; sigma 2.514628e+00 NA NA NA NA NA</div><div class='input'> <span class='fu'><a href='endpoints.html'>endpoints</a></span>(<span class='no'>fit.1</span>)</div><div class='output co'>#&gt; $ff
+ <span class='kw'>anisole</span> <span class='kw'>=</span> <span class='fu'><a href='https://www.rdocumentation.org/packages/base/topics/list'>list</a></span>(<span class='kw'>type</span> <span class='kw'>=</span> <span class='st'>"SFO"</span>))</div><div class='output co'>#&gt; <span class='message'>Successfully compiled differential equation model from auto-generated C code.</span></div><div class='input'> </div><div class='input'> <span class='no'>fit.1</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span>(<span class='no'>SFO_SFO_SFO</span>, <span class='fu'><a href='https://www.rdocumentation.org/packages/base/topics/subset'>subset</a></span>(<span class='no'>mccall81_245T</span>, <span class='no'>soil</span> <span class='kw'>==</span> <span class='st'>"Commerce"</span>), <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><div class='output co'>#&gt; <span class='warning'>Warning: Observations with value of zero were removed from the data</span></div><div class='input'> <span class='fu'><a href='https://www.rdocumentation.org/packages/base/topics/summary'>summary</a></span>(<span class='no'>fit.1</span>)$<span class='no'>bpar</span></div><div class='output co'>#&gt; <span class='warning'>Warning: NaNs wurden erzeugt</span></div><div class='output co'>#&gt; Estimate se_notrans t value Pr(&gt;t) Lower
+#&gt; T245_0 1.038550e+02 2.1508110557 48.286452 3.542232e-18 99.246062215
+#&gt; k_T245_sink 1.636106e-02 NaN NaN NaN 0.012661558
+#&gt; k_T245_phenol 2.700936e-02 NaN NaN NaN 0.024487315
+#&gt; k_phenol_sink 1.788604e-10 NaN NaN NaN 0.000000000
+#&gt; k_phenol_anisole 4.050581e-01 0.1053801116 3.843781 7.970202e-04 0.218013982
+#&gt; k_anisole_sink 6.678742e-03 0.0006205844 10.762020 9.428076e-09 0.005370739
+#&gt; sigma 2.514628e+00 0.3383670685 7.431657 1.054101e-06 1.706607296
+#&gt; Upper
+#&gt; T245_0 1.084640e+02
+#&gt; k_T245_sink 2.114150e-02
+#&gt; k_T245_phenol 2.979116e-02
+#&gt; k_phenol_sink Inf
+#&gt; k_phenol_anisole 7.525759e-01
+#&gt; k_anisole_sink 8.305299e-03
+#&gt; sigma 3.322649e+00</div><div class='input'> <span class='fu'><a href='endpoints.html'>endpoints</a></span>(<span class='no'>fit.1</span>)</div><div class='output co'>#&gt; $ff
#&gt; T245_sink T245_phenol phenol_sink phenol_anisole anisole_sink
#&gt; 3.772401e-01 6.227599e-01 4.415672e-10 1.000000e+00 1.000000e+00
#&gt;
@@ -182,13 +190,20 @@
#&gt; </div><div class='input'> <span class='co'># k_phenol_sink is really small, therefore fix it to zero</span>
<span class='no'>fit.2</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span>(<span class='no'>SFO_SFO_SFO</span>, <span class='fu'><a href='https://www.rdocumentation.org/packages/base/topics/subset'>subset</a></span>(<span class='no'>mccall81_245T</span>, <span class='no'>soil</span> <span class='kw'>==</span> <span class='st'>"Commerce"</span>),
<span class='kw'>parms.ini</span> <span class='kw'>=</span> <span class='fu'><a href='https://www.rdocumentation.org/packages/base/topics/c'>c</a></span>(<span class='kw'>k_phenol_sink</span> <span class='kw'>=</span> <span class='fl'>0</span>),
- <span class='kw'>fixed_parms</span> <span class='kw'>=</span> <span class='st'>"k_phenol_sink"</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><div class='output co'>#&gt; <span class='warning'>Warning: Observations with value of zero were removed from the data</span></div><div class='input'> <span class='fu'><a href='https://www.rdocumentation.org/packages/base/topics/summary'>summary</a></span>(<span class='no'>fit.2</span>)$<span class='no'>bpar</span></div><div class='output co'>#&gt; <span class='warning'>Warning: Could not calculate correlation; no covariance matrix</span></div><div class='output co'>#&gt; Estimate se_notrans t value Pr(&gt;t) Lower Upper
-#&gt; T245_0 1.038550e+02 NA NA NA NA NA
-#&gt; k_T245_sink 1.636106e-02 NA NA NA NA NA
-#&gt; k_T245_phenol 2.700936e-02 NA NA NA NA NA
-#&gt; k_phenol_anisole 4.050581e-01 NA NA NA NA NA
-#&gt; k_anisole_sink 6.678742e-03 NA NA NA NA NA
-#&gt; sigma 2.514628e+00 NA NA NA NA NA</div><div class='input'> <span class='fu'><a href='endpoints.html'>endpoints</a></span>(<span class='no'>fit.1</span>)</div><div class='output co'>#&gt; $ff
+ <span class='kw'>fixed_parms</span> <span class='kw'>=</span> <span class='st'>"k_phenol_sink"</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><div class='output co'>#&gt; <span class='warning'>Warning: Observations with value of zero were removed from the data</span></div><div class='input'> <span class='fu'><a href='https://www.rdocumentation.org/packages/base/topics/summary'>summary</a></span>(<span class='no'>fit.2</span>)$<span class='no'>bpar</span></div><div class='output co'>#&gt; Estimate se_notrans t value Pr(&gt;t) Lower
+#&gt; T245_0 1.038550e+02 2.1623653063 48.028441 4.993105e-19 99.271025146
+#&gt; k_T245_sink 1.636106e-02 0.0019676255 8.315130 1.673674e-07 0.012679148
+#&gt; k_T245_phenol 2.700936e-02 0.0012421966 21.743224 1.314080e-13 0.024500319
+#&gt; k_phenol_anisole 4.050581e-01 0.1177235488 3.440757 1.679237e-03 0.218746679
+#&gt; k_anisole_sink 6.678742e-03 0.0006829745 9.778904 1.872892e-08 0.005377084
+#&gt; sigma 2.514628e+00 0.3790944250 6.633250 2.875782e-06 1.710983655
+#&gt; Upper
+#&gt; T245_0 108.43904395
+#&gt; k_T245_sink 0.02111217
+#&gt; k_T245_phenol 0.02977535
+#&gt; k_phenol_anisole 0.75005504
+#&gt; k_anisole_sink 0.00829550
+#&gt; sigma 3.31827222</div><div class='input'> <span class='fu'><a href='endpoints.html'>endpoints</a></span>(<span class='no'>fit.1</span>)</div><div class='output co'>#&gt; $ff
#&gt; T245_sink T245_phenol phenol_sink phenol_anisole anisole_sink
#&gt; 3.772401e-01 6.227599e-01 4.415672e-10 1.000000e+00 1.000000e+00
#&gt;

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