diff options
| author | Johannes Ranke <jranke@uni-bremen.de> | 2016-11-18 16:28:49 +0100 |
|---|---|---|
| committer | Johannes Ranke <jranke@uni-bremen.de> | 2016-11-18 16:28:49 +0100 |
| commit | e7b2d16306b7d03cde66223c9b27abde928f9447 (patch) | |
| tree | 85d650cfb8e071b00a1228566ec788dc1b477809 /docs/reference/mkinfit.html | |
| parent | 8bdb67360502bd1a8eb5317d287b094510b4a02c (diff) | |
Improve examples for showing with pkgdown
- Use quiet= TRUE in dontrun sections
- Use mkinsub in model definitions
- Avoid \code{\link{}} in titles
Diffstat (limited to 'docs/reference/mkinfit.html')
| -rw-r--r-- | docs/reference/mkinfit.html | 1372 |
1 files changed, 50 insertions, 1322 deletions
diff --git a/docs/reference/mkinfit.html b/docs/reference/mkinfit.html index f6ffd21d..99b10f43 100644 --- a/docs/reference/mkinfit.html +++ b/docs/reference/mkinfit.html @@ -359,15 +359,15 @@ <span class='no'>fit</span> <span class='kw'><-</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'>#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 15:19:37 2016 -#> Date of summary: Fri Nov 18 15:19:37 2016 +#> Date of fit: Fri Nov 18 15:36:12 2016 +#> Date of summary: Fri Nov 18 15:36:12 2016 #> #> Equations: #> d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent #> #> Model predictions using solution type analytical #> -#> Fitted with method Port using 64 model solutions performed in 0.152 s +#> Fitted with method Port using 64 model solutions performed in 0.157 s #> #> Weighting: none #> @@ -436,7 +436,7 @@ <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'>#> <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'><-</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'>#> user system elapsed -#> 1.220 1.184 0.904 </div><div class='input'><span class='fu'>coef</span>(<span class='no'>fit</span>)</div><div class='output co'>#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink +#> 1.264 1.216 0.945 </div><div class='input'><span class='fu'>coef</span>(<span class='no'>fit</span>)</div><div class='output co'>#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink #> 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'>#> $ff #> parent_sink parent_m1 m1_sink #> 0.485524 0.514476 1.000000 @@ -513,7 +513,7 @@ #> Model cost at call 152 : 371.2134 #> Optimisation by method Port successfully terminated. #> user system elapsed -#> 0.712 0.040 0.707 </div><div class='input'><span class='fu'>coef</span>(<span class='no'>fit.deSolve</span>)</div><div class='output co'>#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink +#> 0.712 0.036 0.702 </div><div class='input'><span class='fu'>coef</span>(<span class='no'>fit.deSolve</span>)</div><div class='output co'>#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink #> 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'>#> $ff #> parent_sink parent_m1 m1_sink #> 0.485524 0.514476 1.000000 @@ -532,735 +532,32 @@ <span class='no'>FOMC_SFO</span> <span class='kw'><-</span> <span class='fu'><a href='mkinmod.html'>mkinmod</a></span>( <span class='kw'>parent</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"FOMC"</span>, <span class='st'>"m1"</span>), <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'>#> <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='no'>fit.FOMC_SFO</span> <span class='kw'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>FOMC_SFO</span>, <span class='no'>FOCUS_2006_D</span>)</div><div class='output co'>#> Model cost at call 1 : 18857.28 -#> Model cost at call 4 : 18857.28 -#> Model cost at call 5 : 18857.28 -#> Model cost at call 8 : 15273.94 -#> Model cost at call 9 : 15273.93 -#> Model cost at call 12 : 15273.67 -#> Model cost at call 13 : 15273.64 -#> Model cost at call 14 : 12764.42 -#> Model cost at call 15 : 8382.7 -#> Model cost at call 20 : 8382.696 -#> Model cost at call 23 : 2729.177 -#> Model cost at call 24 : 2729.175 -#> Model cost at call 26 : 2729.164 -#> Model cost at call 30 : 2299.383 -#> Model cost at call 34 : 2299.379 -#> Model cost at call 35 : 2299.373 -#> Model cost at call 36 : 1944.782 -#> Model cost at call 40 : 1944.782 -#> Model cost at call 42 : 1328.087 -#> Model cost at call 43 : 908.661 -#> Model cost at call 44 : 908.6604 -#> Model cost at call 50 : 877.3556 -#> Model cost at call 51 : 877.3554 -#> Model cost at call 54 : 877.3546 -#> Model cost at call 56 : 769.5186 -#> Model cost at call 59 : 769.5157 -#> Model cost at call 62 : 690.3426 -#> Model cost at call 66 : 690.3425 -#> Model cost at call 68 : 608.4032 -#> Model cost at call 72 : 608.4031 -#> Model cost at call 73 : 608.4031 -#> Model cost at call 74 : 601.5178 -#> Model cost at call 78 : 601.5174 -#> Model cost at call 79 : 601.5174 -#> Model cost at call 80 : 459.9885 -#> Model cost at call 81 : 459.9883 -#> Model cost at call 83 : 459.9878 -#> Model cost at call 87 : 447.0145 -#> Model cost at call 91 : 447.0145 -#> Model cost at call 94 : 445.7322 -#> Model cost at call 97 : 445.7322 -#> Model cost at call 99 : 445.7322 -#> Model cost at call 100 : 444.6965 -#> Model cost at call 103 : 444.6965 -#> Model cost at call 106 : 442.9742 -#> Model cost at call 109 : 442.9742 -#> Model cost at call 112 : 439.9665 -#> Model cost at call 115 : 439.9665 -#> Model cost at call 116 : 439.9664 -#> Model cost at call 118 : 435.0752 -#> Model cost at call 121 : 435.0751 -#> Model cost at call 124 : 430.4718 -#> Model cost at call 127 : 430.4717 -#> Model cost at call 132 : 424.7004 -#> Model cost at call 134 : 424.7003 -#> Model cost at call 138 : 423.6102 -#> Model cost at call 141 : 423.6102 -#> Model cost at call 142 : 423.6102 -#> Model cost at call 144 : 421.1786 -#> Model cost at call 147 : 421.1786 -#> Model cost at call 148 : 421.1786 -#> Model cost at call 150 : 418.1431 -#> Model cost at call 151 : 412.8665 -#> Model cost at call 152 : 396.6067 -#> Model cost at call 154 : 396.6067 -#> Model cost at call 158 : 391.0492 -#> Model cost at call 160 : 391.0492 -#> Model cost at call 164 : 385.8205 -#> Model cost at call 165 : 385.8205 -#> Model cost at call 170 : 379.7674 -#> Model cost at call 171 : 379.7674 -#> Model cost at call 172 : 379.7674 -#> Model cost at call 176 : 374.9389 -#> Model cost at call 177 : 374.9389 -#> Model cost at call 182 : 372.727 -#> Model cost at call 185 : 372.727 -#> Model cost at call 188 : 371.5297 -#> Model cost at call 194 : 370.3738 -#> Model cost at call 195 : 370.3738 -#> Model cost at call 200 : 370.0182 -#> Model cost at call 206 : 369.8634 -#> Model cost at call 212 : 369.8188 -#> Model cost at call 213 : 369.8188 -#> Model cost at call 219 : 369.8114 -#> Model cost at call 221 : 369.8114 -#> Model cost at call 224 : 369.8114 -#> Model cost at call 226 : 369.8114 -#> Model cost at call 230 : 369.8105 -#> Model cost at call 231 : 369.8105 -#> Model cost at call 235 : 369.8105 -#> Model cost at call 236 : 369.8105 -#> Model cost at call 237 : 369.8105 -#> Model cost at call 238 : 369.8105 -#> Model cost at call 249 : 369.8105 -#> Model cost at call 260 : 369.8105 -#> Model cost at call 275 : 369.8105 -#> Model cost at call 276 : 369.8105 -#> Optimisation by method Port successfully terminated.</div><div class='input'><span class='co'># Use starting parameters from parent only FOMC fit</span> -<span class='no'>fit.FOMC</span> <span class='kw'>=</span> <span class='fu'>mkinfit</span>(<span class='st'>"FOMC"</span>, <span class='no'>FOCUS_2006_D</span>)</div><div class='output co'>#> Model cost at call 1 : 3237.008 -#> Model cost at call 3 : 3237.007 -#> Model cost at call 6 : 671.2571 -#> Model cost at call 7 : 671.2559 -#> Model cost at call 8 : 671.2301 -#> Model cost at call 9 : 671.2249 -#> Model cost at call 10 : 468.4899 -#> Model cost at call 12 : 468.4899 -#> Model cost at call 14 : 371.3486 -#> Model cost at call 16 : 371.3485 -#> Model cost at call 18 : 346.2972 -#> Model cost at call 19 : 346.2971 -#> Model cost at call 20 : 346.297 -#> Model cost at call 21 : 346.2969 -#> Model cost at call 22 : 269.7053 -#> Model cost at call 23 : 269.7053 -#> Model cost at call 26 : 243.9936 -#> Model cost at call 27 : 235.1625 -#> Model cost at call 28 : 235.1624 -#> Model cost at call 30 : 235.1624 -#> Model cost at call 31 : 224.2195 -#> Model cost at call 35 : 218.1922 -#> Model cost at call 36 : 218.1922 -#> Model cost at call 38 : 218.1922 -#> Model cost at call 39 : 211.5012 -#> Model cost at call 41 : 211.5012 -#> Model cost at call 43 : 207.9511 -#> Model cost at call 44 : 207.9511 -#> Model cost at call 47 : 206.5377 -#> Model cost at call 51 : 205.8736 -#> Model cost at call 55 : 205.5625 -#> Model cost at call 59 : 205.4704 -#> Model cost at call 63 : 205.4499 -#> Model cost at call 67 : 205.448 -#> Model cost at call 69 : 205.448 -#> Model cost at call 70 : 205.448 -#> Model cost at call 73 : 205.448 -#> Model cost at call 74 : 205.4478 -#> Model cost at call 75 : 205.4478 -#> Model cost at call 77 : 205.4478 -#> Model cost at call 79 : 205.4478 -#> Model cost at call 84 : 205.4478 -#> Model cost at call 95 : 205.4478 -#> Model cost at call 98 : 205.4478 -#> Optimisation by method Port successfully terminated.</div><div class='input'><span class='no'>fit.FOMC_SFO</span> <span class='kw'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>FOMC_SFO</span>, <span class='no'>FOCUS_2006_D</span>, - <span class='kw'>parms.ini</span> <span class='kw'>=</span> <span class='no'>fit.FOMC</span>$<span class='no'>bparms.ode</span>)</div><div class='output co'>#> Model cost at call 1 : 15169.96 -#> Model cost at call 2 : 15169.96 -#> Model cost at call 7 : 8247.462 -#> Model cost at call 14 : 6734.371 -#> Model cost at call 15 : 6734.339 -#> Model cost at call 16 : 6734.136 -#> Model cost at call 20 : 4855.056 -#> Model cost at call 24 : 4855.038 -#> Model cost at call 27 : 1239.986 -#> Model cost at call 29 : 1239.985 -#> Model cost at call 34 : 1030.523 -#> Model cost at call 38 : 1030.523 -#> Model cost at call 40 : 894.2766 -#> Model cost at call 43 : 894.275 -#> Model cost at call 46 : 750.3629 -#> Model cost at call 49 : 750.3623 -#> Model cost at call 52 : 627.6819 -#> Model cost at call 55 : 627.6818 -#> Model cost at call 58 : 546.2947 -#> Model cost at call 61 : 546.2944 -#> Model cost at call 65 : 502.5529 -#> Model cost at call 69 : 502.5525 -#> Model cost at call 70 : 502.5525 -#> Model cost at call 71 : 475.2423 -#> Model cost at call 72 : 465.5298 -#> Model cost at call 75 : 465.5298 -#> Model cost at call 76 : 465.5297 -#> Model cost at call 78 : 464.9476 -#> Model cost at call 81 : 464.9476 -#> Model cost at call 82 : 464.9473 -#> Model cost at call 84 : 426.9626 -#> Model cost at call 88 : 426.9626 -#> Model cost at call 90 : 414.5235 -#> Model cost at call 93 : 414.5234 -#> Model cost at call 96 : 412.1478 -#> Model cost at call 99 : 412.1477 -#> Model cost at call 100 : 412.1477 -#> Model cost at call 101 : 412.1477 -#> Model cost at call 102 : 394.146 -#> Model cost at call 105 : 394.146 -#> Model cost at call 106 : 394.146 -#> Model cost at call 107 : 394.146 -#> Model cost at call 108 : 384.2002 -#> Model cost at call 112 : 384.2001 -#> Model cost at call 113 : 384.2001 -#> Model cost at call 115 : 380.5495 -#> Model cost at call 119 : 380.5494 -#> Model cost at call 120 : 380.5494 -#> Model cost at call 121 : 378.4803 -#> Model cost at call 123 : 378.4802 -#> Model cost at call 124 : 378.4792 -#> Model cost at call 127 : 374.8432 -#> Model cost at call 129 : 374.8431 -#> Model cost at call 133 : 372.8364 -#> Model cost at call 136 : 372.8364 -#> Model cost at call 137 : 372.8363 -#> Model cost at call 138 : 372.8363 -#> Model cost at call 141 : 372.668 -#> Model cost at call 145 : 372.6679 -#> Model cost at call 147 : 372.5882 -#> Model cost at call 150 : 372.5882 -#> Model cost at call 153 : 372.4828 -#> Model cost at call 156 : 372.4828 -#> Model cost at call 159 : 372.3639 -#> Model cost at call 162 : 372.3639 -#> Model cost at call 163 : 372.3639 -#> Model cost at call 164 : 372.3639 -#> Model cost at call 165 : 372.1959 -#> Model cost at call 168 : 372.1959 -#> Model cost at call 171 : 371.9627 -#> Model cost at call 172 : 371.7467 -#> Model cost at call 173 : 371.1161 -#> Model cost at call 174 : 370.3326 -#> Model cost at call 177 : 370.3326 -#> Model cost at call 178 : 370.3326 -#> Model cost at call 180 : 370.3267 -#> Model cost at call 186 : 370.0471 -#> Model cost at call 187 : 370.0471 -#> Model cost at call 193 : 369.9649 -#> Model cost at call 194 : 369.9649 -#> Model cost at call 196 : 369.9649 -#> Model cost at call 199 : 369.8684 -#> Model cost at call 200 : 369.8684 -#> Model cost at call 204 : 369.8684 -#> Model cost at call 206 : 369.8349 -#> Model cost at call 207 : 369.8349 -#> Model cost at call 209 : 369.8349 -#> Model cost at call 210 : 369.8349 -#> Model cost at call 211 : 369.8349 -#> Model cost at call 212 : 369.8105 -#> Model cost at call 214 : 369.8105 -#> Model cost at call 218 : 369.8105 -#> Model cost at call 220 : 369.8105 -#> Model cost at call 225 : 369.8105 -#> Model cost at call 229 : 369.8105 -#> Model cost at call 231 : 369.8105 -#> Model cost at call 232 : 369.8105 -#> Model cost at call 236 : 369.8105 -#> Model cost at call 239 : 369.8105 -#> Model cost at call 240 : 369.8105 -#> Model cost at call 255 : 369.8105 -#> Model cost at call 258 : 369.8105 -#> Optimisation by method Port successfully terminated.</div><div class='input'> +<span class='no'>fit.FOMC_SFO</span> <span class='kw'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>FOMC_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='co'># Use starting parameters from parent only FOMC fit</span> +<span class='no'>fit.FOMC</span> <span class='kw'>=</span> <span class='fu'>mkinfit</span>(<span class='st'>"FOMC"</span>, <span class='no'>FOCUS_2006_D</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>) +<span class='no'>fit.FOMC_SFO</span> <span class='kw'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>FOMC_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='kw'>parms.ini</span> <span class='kw'>=</span> <span class='no'>fit.FOMC</span>$<span class='no'>bparms.ode</span>) + <span class='co'># Use stepwise fitting, using optimised parameters from parent only fit, SFORB</span> <span class='no'>SFORB_SFO</span> <span class='kw'><-</span> <span class='fu'><a href='mkinmod.html'>mkinmod</a></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'>"SFORB"</span>, <span class='kw'>to</span> <span class='kw'>=</span> <span class='st'>"m1"</span>, <span class='kw'>sink</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>), <span class='kw'>m1</span> <span class='kw'>=</span> <span class='fu'>list</span>(<span class='kw'>type</span> <span class='kw'>=</span> <span class='st'>"SFO"</span>))</div><div class='output co'>#> <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='no'>fit.SFORB_SFO</span> <span class='kw'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFORB_SFO</span>, <span class='no'>FOCUS_2006_D</span>)</div><div class='output co'>#> Model cost at call 1 : 19233.21 -#> Model cost at call 2 : 19233.21 -#> Model cost at call 5 : 19233.21 -#> Model cost at call 8 : 14482.65 -#> Model cost at call 11 : 14482.51 -#> Model cost at call 13 : 14482.17 -#> Model cost at call 15 : 6973.814 -#> Model cost at call 16 : 5161.041 -#> Model cost at call 17 : 5161.029 -#> Model cost at call 22 : 5161.026 -#> Model cost at call 24 : 3249.595 -#> Model cost at call 26 : 3249.595 -#> Model cost at call 27 : 3249.519 -#> Model cost at call 31 : 2615.891 -#> Model cost at call 32 : 2615.888 -#> Model cost at call 39 : 989.1788 -#> Model cost at call 44 : 989.1772 -#> Model cost at call 45 : 989.1771 -#> Model cost at call 47 : 647.4307 -#> Model cost at call 50 : 647.4302 -#> Model cost at call 51 : 647.4261 -#> Model cost at call 54 : 626.7937 -#> Model cost at call 55 : 626.7935 -#> Model cost at call 56 : 626.7931 -#> Model cost at call 61 : 527.9042 -#> Model cost at call 62 : 527.9041 -#> Model cost at call 68 : 505.8828 -#> Model cost at call 70 : 505.8828 -#> Model cost at call 73 : 505.8827 -#> Model cost at call 75 : 452.8932 -#> Model cost at call 77 : 452.893 -#> Model cost at call 82 : 414.4918 -#> Model cost at call 83 : 414.4918 -#> Model cost at call 84 : 414.4918 -#> Model cost at call 88 : 414.4917 -#> Model cost at call 89 : 408.2617 -#> Model cost at call 90 : 408.2616 -#> Model cost at call 91 : 408.2616 -#> Model cost at call 95 : 408.2615 -#> Model cost at call 96 : 384.4461 -#> Model cost at call 102 : 384.4461 -#> Model cost at call 104 : 383.4905 -#> Model cost at call 105 : 383.4905 -#> Model cost at call 106 : 383.4905 -#> Model cost at call 109 : 383.4904 -#> Model cost at call 111 : 381.8828 -#> Model cost at call 112 : 381.8827 -#> Model cost at call 118 : 380.8499 -#> Model cost at call 120 : 380.8499 -#> Model cost at call 123 : 380.8499 -#> Model cost at call 125 : 379.1403 -#> Model cost at call 127 : 379.1402 -#> Model cost at call 132 : 376.4962 -#> Model cost at call 133 : 373.0958 -#> Model cost at call 134 : 365.247 -#> Model cost at call 137 : 365.2469 -#> Model cost at call 142 : 360.8231 -#> Model cost at call 143 : 360.8231 -#> Model cost at call 146 : 360.8231 -#> Model cost at call 148 : 360.8231 -#> Model cost at call 149 : 358.3976 -#> Model cost at call 152 : 358.3976 -#> Model cost at call 154 : 358.3976 -#> Model cost at call 156 : 355.9066 -#> Model cost at call 157 : 355.9066 -#> Model cost at call 163 : 354.3386 -#> Model cost at call 164 : 353.6335 -#> Model cost at call 172 : 353.2094 -#> Model cost at call 173 : 353.2094 -#> Model cost at call 174 : 353.2093 -#> Model cost at call 177 : 353.2093 -#> Model cost at call 178 : 353.2093 -#> Model cost at call 179 : 352.6641 -#> Model cost at call 182 : 352.6641 -#> Model cost at call 183 : 352.6641 -#> Model cost at call 186 : 352.4908 -#> Model cost at call 187 : 352.4429 -#> Model cost at call 195 : 352.3246 -#> Model cost at call 203 : 352.2858 -#> Model cost at call 204 : 352.2858 -#> Model cost at call 205 : 352.2858 -#> Model cost at call 206 : 352.2858 -#> Model cost at call 207 : 352.2858 -#> Model cost at call 210 : 352.2332 -#> Model cost at call 211 : 352.2081 -#> Model cost at call 214 : 352.2081 -#> Model cost at call 216 : 352.2081 -#> Model cost at call 218 : 352.2049 -#> Model cost at call 219 : 352.2049 -#> Model cost at call 220 : 352.2049 -#> Model cost at call 226 : 352.2048 -#> Model cost at call 228 : 352.2048 -#> Model cost at call 231 : 352.2048 -#> Model cost at call 232 : 352.2048 -#> Model cost at call 238 : 352.2048 -#> Model cost at call 239 : 352.2048 -#> Model cost at call 251 : 352.2048 -#> Model cost at call 264 : 352.2048 -#> Model cost at call 283 : 352.2048 -#> Model cost at call 284 : 352.2048 -#> Model cost at call 285 : 352.2048 -#> Model cost at call 286 : 352.2048 -#> Optimisation by method Port successfully terminated.</div><div class='input'><span class='no'>fit.SFORB_SFO.deSolve</span> <span class='kw'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFORB_SFO</span>, <span class='no'>FOCUS_2006_D</span>, <span class='kw'>solution_type</span> <span class='kw'>=</span> <span class='st'>"deSolve"</span>)</div><div class='output co'>#> Model cost at call 1 : 19233.21 -#> Model cost at call 2 : 19233.21 -#> Model cost at call 5 : 19233.21 -#> Model cost at call 8 : 14482.65 -#> Model cost at call 11 : 14482.51 -#> Model cost at call 13 : 14482.17 -#> Model cost at call 15 : 6973.814 -#> Model cost at call 16 : 5161.041 -#> Model cost at call 17 : 5161.029 -#> Model cost at call 22 : 5161.026 -#> Model cost at call 24 : 3249.595 -#> Model cost at call 26 : 3249.595 -#> Model cost at call 27 : 3249.519 -#> Model cost at call 31 : 2615.891 -#> Model cost at call 32 : 2615.888 -#> Model cost at call 39 : 989.1788 -#> Model cost at call 44 : 989.1772 -#> Model cost at call 45 : 989.1771 -#> Model cost at call 47 : 647.4307 -#> Model cost at call 50 : 647.4302 -#> Model cost at call 51 : 647.4261 -#> Model cost at call 54 : 626.7937 -#> Model cost at call 55 : 626.7935 -#> Model cost at call 56 : 626.7931 -#> Model cost at call 61 : 527.9042 -#> Model cost at call 62 : 527.9041 -#> Model cost at call 68 : 505.8828 -#> Model cost at call 70 : 505.8828 -#> Model cost at call 73 : 505.8827 -#> Model cost at call 75 : 452.8932 -#> Model cost at call 77 : 452.893 -#> Model cost at call 82 : 414.4918 -#> Model cost at call 83 : 414.4918 -#> Model cost at call 84 : 414.4918 -#> Model cost at call 88 : 414.4917 -#> Model cost at call 89 : 408.2617 -#> Model cost at call 90 : 408.2616 -#> Model cost at call 91 : 408.2616 -#> Model cost at call 95 : 408.2615 -#> Model cost at call 96 : 384.4461 -#> Model cost at call 102 : 384.4461 -#> Model cost at call 104 : 383.4905 -#> Model cost at call 105 : 383.4905 -#> Model cost at call 106 : 383.4905 -#> Model cost at call 109 : 383.4904 -#> Model cost at call 111 : 381.8828 -#> Model cost at call 112 : 381.8827 -#> Model cost at call 118 : 380.8499 -#> Model cost at call 120 : 380.8499 -#> Model cost at call 123 : 380.8499 -#> Model cost at call 125 : 379.1403 -#> Model cost at call 127 : 379.1402 -#> Model cost at call 132 : 376.4962 -#> Model cost at call 133 : 373.0958 -#> Model cost at call 134 : 365.247 -#> Model cost at call 137 : 365.2469 -#> Model cost at call 142 : 360.8231 -#> Model cost at call 143 : 360.8231 -#> Model cost at call 146 : 360.8231 -#> Model cost at call 148 : 360.8231 -#> Model cost at call 149 : 358.3976 -#> Model cost at call 152 : 358.3976 -#> Model cost at call 154 : 358.3976 -#> Model cost at call 156 : 355.9066 -#> Model cost at call 157 : 355.9066 -#> Model cost at call 163 : 354.3386 -#> Model cost at call 164 : 353.6335 -#> Model cost at call 172 : 353.2094 -#> Model cost at call 173 : 353.2094 -#> Model cost at call 174 : 353.2093 -#> Model cost at call 177 : 353.2093 -#> Model cost at call 178 : 353.2093 -#> Model cost at call 179 : 352.6641 -#> Model cost at call 182 : 352.6641 -#> Model cost at call 183 : 352.6641 -#> Model cost at call 186 : 352.4908 -#> Model cost at call 187 : 352.4429 -#> Model cost at call 195 : 352.3246 -#> Model cost at call 203 : 352.2858 -#> Model cost at call 204 : 352.2858 -#> Model cost at call 205 : 352.2858 -#> Model cost at call 206 : 352.2858 -#> Model cost at call 207 : 352.2858 -#> Model cost at call 210 : 352.2332 -#> Model cost at call 211 : 352.2081 -#> Model cost at call 214 : 352.2081 -#> Model cost at call 216 : 352.2081 -#> Model cost at call 218 : 352.2049 -#> Model cost at call 219 : 352.2049 -#> Model cost at call 220 : 352.2049 -#> Model cost at call 226 : 352.2048 -#> Model cost at call 228 : 352.2048 -#> Model cost at call 231 : 352.2048 -#> Model cost at call 232 : 352.2048 -#> Model cost at call 238 : 352.2048 -#> Model cost at call 239 : 352.2048 -#> Model cost at call 251 : 352.2048 -#> Model cost at call 264 : 352.2048 -#> Model cost at call 283 : 352.2048 -#> Model cost at call 284 : 352.2048 -#> Model cost at call 285 : 352.2048 -#> Model cost at call 286 : 352.2048 -#> Optimisation by method Port successfully terminated.</div><div class='input'><span class='co'># Use starting parameters from parent only SFORB fit (not really needed in this case)</span> -<span class='no'>fit.SFORB</span> <span class='kw'>=</span> <span class='fu'>mkinfit</span>(<span class='st'>"SFORB"</span>, <span class='no'>FOCUS_2006_D</span>)</div><div class='output co'>#> Model cost at call 1 : 10426.65 -#> Model cost at call 3 : 10426.65 -#> Model cost at call 6 : 1995.326 -#> Model cost at call 7 : 1995.322 -#> Model cost at call 8 : 1995.14 -#> Model cost at call 11 : 718.5568 -#> Model cost at call 12 : 718.5566 -#> Model cost at call 13 : 718.5563 -#> Model cost at call 16 : 408.9208 -#> Model cost at call 17 : 408.9204 -#> Model cost at call 18 : 408.9204 -#> Model cost at call 20 : 408.9203 -#> Model cost at call 21 : 402.7935 -#> Model cost at call 22 : 402.793 -#> Model cost at call 26 : 202.0443 -#> Model cost at call 28 : 202.0443 -#> Model cost at call 30 : 202.0443 -#> Model cost at call 31 : 196.438 -#> Model cost at call 36 : 196.1947 -#> Model cost at call 37 : 196.1947 -#> Model cost at call 41 : 192.9338 -#> Model cost at call 43 : 192.9338 -#> Model cost at call 45 : 192.9338 -#> Model cost at call 46 : 191.6452 -#> Model cost at call 47 : 191.6452 -#> Model cost at call 51 : 188.9328 -#> Model cost at call 54 : 188.9328 -#> Model cost at call 55 : 188.9328 -#> Model cost at call 56 : 183.6499 -#> Model cost at call 59 : 183.6499 -#> Model cost at call 62 : 181.9039 -#> Model cost at call 67 : 179.0543 -#> Model cost at call 68 : 179.0543 -#> Model cost at call 69 : 179.0543 -#> Model cost at call 70 : 179.0543 -#> Model cost at call 72 : 176.749 -#> Model cost at call 73 : 176.2321 -#> Model cost at call 74 : 176.232 -#> Model cost at call 75 : 176.232 -#> Model cost at call 76 : 176.232 -#> Model cost at call 78 : 175.3914 -#> Model cost at call 79 : 175.3914 -#> Model cost at call 81 : 175.3913 -#> Model cost at call 83 : 174.6257 -#> Model cost at call 84 : 174.6257 -#> Model cost at call 89 : 174.1476 -#> Model cost at call 92 : 174.1476 -#> Model cost at call 93 : 174.1476 -#> Model cost at call 94 : 173.8512 -#> Model cost at call 99 : 173.6987 -#> Model cost at call 104 : 173.6813 -#> Model cost at call 105 : 173.6813 -#> Model cost at call 106 : 173.6813 -#> Model cost at call 107 : 173.6813 -#> Model cost at call 108 : 173.6813 -#> Model cost at call 109 : 173.6802 -#> Model cost at call 110 : 173.6802 -#> Model cost at call 111 : 173.6802 -#> Model cost at call 112 : 173.6802 -#> Model cost at call 113 : 173.6802 -#> Model cost at call 114 : 173.6799 -#> Model cost at call 116 : 173.6799 -#> Model cost at call 118 : 173.6799 -#> Model cost at call 119 : 173.6799 -#> Model cost at call 120 : 173.6799 -#> Model cost at call 129 : 173.6799 -#> Model cost at call 141 : 173.6799 -#> Optimisation by method Port successfully terminated.</div><div class='input'><span class='no'>fit.SFORB_SFO</span> <span class='kw'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFORB_SFO</span>, <span class='no'>FOCUS_2006_D</span>, <span class='kw'>parms.ini</span> <span class='kw'>=</span> <span class='no'>fit.SFORB</span>$<span class='no'>bparms.ode</span>)</div><div class='output co'>#> Model cost at call 1 : 18365.33 -#> Model cost at call 2 : 18365.33 -#> Model cost at call 8 : 11666.4 -#> Model cost at call 9 : 10992.15 -#> Model cost at call 10 : 10992.13 -#> Model cost at call 11 : 10991.95 -#> Model cost at call 12 : 10991.17 -#> Model cost at call 14 : 10990.65 -#> Model cost at call 17 : 3940.801 -#> Model cost at call 20 : 3940.8 -#> Model cost at call 22 : 3940.798 -#> Model cost at call 24 : 3241.199 -#> Model cost at call 27 : 3241.198 -#> Model cost at call 30 : 3241.192 -#> Model cost at call 31 : 1518.749 -#> Model cost at call 37 : 1518.747 -#> Model cost at call 39 : 1091.836 -#> Model cost at call 42 : 1091.835 -#> Model cost at call 43 : 1091.835 -#> Model cost at call 44 : 1091.804 -#> Model cost at call 46 : 927.8538 -#> Model cost at call 49 : 927.8529 -#> Model cost at call 53 : 638.102 -#> Model cost at call 56 : 638.1019 -#> Model cost at call 58 : 638.1018 -#> Model cost at call 61 : 560.4352 -#> Model cost at call 62 : 560.435 -#> Model cost at call 63 : 560.4327 -#> Model cost at call 68 : 423.9629 -#> Model cost at call 69 : 423.9629 -#> Model cost at call 70 : 423.9629 -#> Model cost at call 71 : 423.9628 -#> Model cost at call 73 : 423.9628 -#> Model cost at call 75 : 395.8015 -#> Model cost at call 78 : 395.8013 -#> Model cost at call 79 : 395.8013 -#> Model cost at call 83 : 365.6975 -#> Model cost at call 84 : 365.6975 -#> Model cost at call 88 : 365.6975 -#> Model cost at call 91 : 362.9843 -#> Model cost at call 93 : 362.9843 -#> Model cost at call 98 : 361.5506 -#> Model cost at call 99 : 361.5506 -#> Model cost at call 100 : 361.5505 -#> Model cost at call 105 : 359.0492 -#> Model cost at call 106 : 359.0492 -#> Model cost at call 112 : 357.6574 -#> Model cost at call 113 : 357.6574 -#> Model cost at call 114 : 357.6574 -#> Model cost at call 115 : 357.6574 -#> Model cost at call 119 : 355.4518 -#> Model cost at call 120 : 355.4518 -#> Model cost at call 127 : 354.9045 -#> Model cost at call 129 : 354.9045 -#> Model cost at call 131 : 354.9045 -#> Model cost at call 134 : 354.4168 -#> Model cost at call 135 : 354.4168 -#> Model cost at call 137 : 354.4167 -#> Model cost at call 141 : 353.7901 -#> Model cost at call 142 : 353.7901 -#> Model cost at call 143 : 353.7899 -#> Model cost at call 149 : 353.3233 -#> Model cost at call 151 : 353.3233 -#> Model cost at call 154 : 353.3233 -#> Model cost at call 156 : 353.2939 -#> Model cost at call 158 : 353.2938 -#> Model cost at call 159 : 353.2938 -#> Model cost at call 160 : 353.2938 -#> Model cost at call 163 : 353.0571 -#> Model cost at call 165 : 353.0571 -#> Model cost at call 170 : 352.9457 -#> Model cost at call 171 : 352.7458 -#> Model cost at call 173 : 352.7457 -#> Model cost at call 178 : 352.6377 -#> Model cost at call 180 : 352.6377 -#> Model cost at call 183 : 352.6377 -#> Model cost at call 185 : 352.5377 -#> Model cost at call 187 : 352.5377 -#> Model cost at call 188 : 352.5377 -#> Model cost at call 191 : 352.5377 -#> Model cost at call 193 : 352.4479 -#> Model cost at call 195 : 352.4479 -#> Model cost at call 198 : 352.4479 -#> Model cost at call 200 : 352.4021 -#> Model cost at call 202 : 352.4021 -#> Model cost at call 205 : 352.4021 -#> Model cost at call 207 : 352.3465 -#> Model cost at call 210 : 352.3465 -#> Model cost at call 214 : 352.3031 -#> Model cost at call 216 : 352.3031 -#> Model cost at call 221 : 352.2632 -#> Model cost at call 223 : 352.2632 -#> Model cost at call 228 : 352.2367 -#> Model cost at call 230 : 352.2367 -#> Model cost at call 231 : 352.2367 -#> Model cost at call 233 : 352.2367 -#> Model cost at call 235 : 352.215 -#> Model cost at call 238 : 352.215 -#> Model cost at call 239 : 352.215 -#> Model cost at call 242 : 352.207 -#> Model cost at call 245 : 352.207 -#> Model cost at call 250 : 352.2053 -#> Model cost at call 251 : 352.2053 -#> Model cost at call 253 : 352.2053 -#> Model cost at call 256 : 352.2053 -#> Model cost at call 258 : 352.2053 -#> Model cost at call 259 : 352.2052 -#> Model cost at call 260 : 352.2052 -#> Model cost at call 263 : 352.2052 -#> Model cost at call 271 : 352.2048 -#> Model cost at call 273 : 352.2048 -#> Model cost at call 274 : 352.2048 -#> Model cost at call 281 : 352.2048 -#> Model cost at call 282 : 352.2048 -#> Model cost at call 286 : 352.2048 -#> Model cost at call 289 : 352.2048 -#> Model cost at call 294 : 352.2048 -#> Model cost at call 296 : 352.2048 -#> Model cost at call 300 : 352.2048 -#> Model cost at call 307 : 352.2048 -#> Model cost at call 325 : 352.2048 -#> Model cost at call 331 : 352.2048 -#> Model cost at call 333 : 352.2048 -#> Optimisation by method Port successfully terminated.</div><div class='input'> +<span class='no'>fit.SFORB_SFO</span> <span class='kw'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFORB_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='no'>fit.SFORB_SFO.deSolve</span> <span class='kw'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFORB_SFO</span>, <span class='no'>FOCUS_2006_D</span>, <span class='kw'>solution_type</span> <span class='kw'>=</span> <span class='st'>"deSolve"</span>, + <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>) +<span class='co'># Use starting parameters from parent only SFORB fit (not really needed in this case)</span> +<span class='no'>fit.SFORB</span> <span class='kw'>=</span> <span class='fu'>mkinfit</span>(<span class='st'>"SFORB"</span>, <span class='no'>FOCUS_2006_D</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>) +<span class='no'>fit.SFORB_SFO</span> <span class='kw'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFORB_SFO</span>, <span class='no'>FOCUS_2006_D</span>, <span class='kw'>parms.ini</span> <span class='kw'>=</span> <span class='no'>fit.SFORB</span>$<span class='no'>bparms.ode</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>) + <span class='co'># Weighted fits, including IRLS</span> <span class='no'>SFO_SFO.ff</span> <span class='kw'><-</span> <span class='fu'><a href='mkinmod.html'>mkinmod</a></span>(<span class='kw'>parent</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>, <span class='st'>"m1"</span>), - <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'>#> <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'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFO_SFO.ff</span>, <span class='no'>FOCUS_2006_D</span>)</div><div class='output co'>#> Model cost at call 1 : 15156.12 -#> Model cost at call 2 : 15156.12 -#> Model cost at call 6 : 8243.644 -#> Model cost at call 12 : 6290.714 -#> Model cost at call 13 : 6290.684 -#> Model cost at call 15 : 6290.453 -#> Model cost at call 18 : 1700.75 -#> Model cost at call 20 : 1700.612 -#> Model cost at call 24 : 1190.923 -#> Model cost at call 26 : 1190.922 -#> Model cost at call 29 : 1017.417 -#> Model cost at call 31 : 1017.417 -#> Model cost at call 33 : 1017.416 -#> Model cost at call 34 : 644.0471 -#> Model cost at call 36 : 644.0469 -#> Model cost at call 38 : 644.0468 -#> Model cost at call 39 : 590.5024 -#> Model cost at call 41 : 590.5021 -#> Model cost at call 43 : 590.5015 -#> Model cost at call 44 : 543.2187 -#> Model cost at call 45 : 543.2183 -#> Model cost at call 46 : 543.2182 -#> Model cost at call 50 : 391.348 -#> Model cost at call 51 : 391.3479 -#> Model cost at call 56 : 386.4789 -#> Model cost at call 58 : 386.4789 -#> Model cost at call 60 : 386.4779 -#> Model cost at call 61 : 384.0686 -#> Model cost at call 63 : 384.0686 -#> Model cost at call 66 : 382.7812 -#> Model cost at call 68 : 382.7812 -#> Model cost at call 70 : 382.7812 -#> Model cost at call 71 : 378.9272 -#> Model cost at call 73 : 378.9272 -#> Model cost at call 75 : 378.9272 -#> Model cost at call 76 : 377.4846 -#> Model cost at call 78 : 377.4846 -#> Model cost at call 81 : 375.9738 -#> Model cost at call 83 : 375.9738 -#> Model cost at call 86 : 375.3387 -#> Model cost at call 88 : 375.3387 -#> Model cost at call 91 : 374.5774 -#> Model cost at call 93 : 374.5774 -#> Model cost at call 95 : 374.5774 -#> Model cost at call 96 : 373.5447 -#> Model cost at call 100 : 373.5446 -#> Model cost at call 102 : 373.2643 -#> Model cost at call 104 : 373.2643 -#> Model cost at call 107 : 372.6799 -#> Model cost at call 111 : 372.6798 -#> Model cost at call 114 : 372.6325 -#> Model cost at call 116 : 372.6325 -#> Model cost at call 119 : 372.6159 -#> Model cost at call 121 : 372.6159 -#> Model cost at call 123 : 372.6159 -#> Model cost at call 124 : 372.5845 -#> Model cost at call 126 : 372.5845 -#> Model cost at call 129 : 372.5375 -#> Model cost at call 130 : 372.4771 -#> Model cost at call 131 : 372.2008 -#> Model cost at call 132 : 371.4923 -#> Model cost at call 134 : 371.4923 -#> Model cost at call 137 : 371.3022 -#> Model cost at call 139 : 371.3022 -#> Model cost at call 143 : 371.2271 -#> Model cost at call 144 : 371.2271 -#> Model cost at call 148 : 371.2202 -#> Model cost at call 149 : 371.215 -#> Model cost at call 152 : 371.215 -#> Model cost at call 154 : 371.2136 -#> Model cost at call 155 : 371.2136 -#> Model cost at call 156 : 371.2136 -#> Model cost at call 160 : 371.2134 -#> Model cost at call 164 : 371.2134 -#> Model cost at call 167 : 371.2134 -#> Optimisation by method Port successfully terminated.</div><div class='input'><span class='fu'>summary</span>(<span class='no'>f.noweight</span>)</div><div class='output co'>#> mkin version: 0.9.44.9000 + <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'>#> <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'><-</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'>#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 15:19:47 2016 -#> Date of summary: Fri Nov 18 15:19:47 2016 +#> Date of fit: Fri Nov 18 15:36:22 2016 +#> Date of summary: Fri Nov 18 15:36:22 2016 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -1268,7 +565,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 185 model solutions performed in 0.748 s +#> Fitted with method Port using 185 model solutions performed in 0.752 s #> #> Weighting: none #> @@ -1377,146 +674,11 @@ #> 100 m1 31.04 3.198e+01 -9.416e-01 #> 100 m1 33.13 3.198e+01 1.148e+00 #> 120 m1 25.15 2.879e+01 -3.640e+00 -#> 120 m1 33.31 2.879e+01 4.520e+00</div><div class='input'><span class='no'>f.irls</span> <span class='kw'><-</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>)</div><div class='output co'>#> Model cost at call 1 : 15156.12 -#> Model cost at call 2 : 15156.12 -#> Model cost at call 6 : 8243.644 -#> Model cost at call 12 : 6290.714 -#> Model cost at call 13 : 6290.684 -#> Model cost at call 15 : 6290.453 -#> Model cost at call 18 : 1700.75 -#> Model cost at call 20 : 1700.612 -#> Model cost at call 24 : 1190.923 -#> Model cost at call 26 : 1190.922 -#> Model cost at call 29 : 1017.417 -#> Model cost at call 31 : 1017.417 -#> Model cost at call 33 : 1017.416 -#> Model cost at call 34 : 644.0471 -#> Model cost at call 36 : 644.0469 -#> Model cost at call 38 : 644.0468 -#> Model cost at call 39 : 590.5024 -#> Model cost at call 41 : 590.5021 -#> Model cost at call 43 : 590.5015 -#> Model cost at call 44 : 543.2187 -#> Model cost at call 45 : 543.2183 -#> Model cost at call 46 : 543.2182 -#> Model cost at call 50 : 391.348 -#> Model cost at call 51 : 391.3479 -#> Model cost at call 56 : 386.4789 -#> Model cost at call 58 : 386.4789 -#> Model cost at call 60 : 386.4779 -#> Model cost at call 61 : 384.0686 -#> Model cost at call 63 : 384.0686 -#> Model cost at call 66 : 382.7812 -#> Model cost at call 68 : 382.7812 -#> Model cost at call 70 : 382.7812 -#> Model cost at call 71 : 378.9272 -#> Model cost at call 73 : 378.9272 -#> Model cost at call 75 : 378.9272 -#> Model cost at call 76 : 377.4846 -#> Model cost at call 78 : 377.4846 -#> Model cost at call 81 : 375.9738 -#> Model cost at call 83 : 375.9738 -#> Model cost at call 86 : 375.3387 -#> Model cost at call 88 : 375.3387 -#> Model cost at call 91 : 374.5774 -#> Model cost at call 93 : 374.5774 -#> Model cost at call 95 : 374.5774 -#> Model cost at call 96 : 373.5447 -#> Model cost at call 100 : 373.5446 -#> Model cost at call 102 : 373.2643 -#> Model cost at call 104 : 373.2643 -#> Model cost at call 107 : 372.6799 -#> Model cost at call 111 : 372.6798 -#> Model cost at call 114 : 372.6325 -#> Model cost at call 116 : 372.6325 -#> Model cost at call 119 : 372.6159 -#> Model cost at call 121 : 372.6159 -#> Model cost at call 123 : 372.6159 -#> Model cost at call 124 : 372.5845 -#> Model cost at call 126 : 372.5845 -#> Model cost at call 129 : 372.5375 -#> Model cost at call 130 : 372.4771 -#> Model cost at call 131 : 372.2008 -#> Model cost at call 132 : 371.4923 -#> Model cost at call 134 : 371.4923 -#> Model cost at call 137 : 371.3022 -#> Model cost at call 139 : 371.3022 -#> Model cost at call 143 : 371.2271 -#> Model cost at call 144 : 371.2271 -#> Model cost at call 148 : 371.2202 -#> Model cost at call 149 : 371.215 -#> Model cost at call 152 : 371.215 -#> Model cost at call 154 : 371.2136 -#> Model cost at call 155 : 371.2136 -#> Model cost at call 156 : 371.2136 -#> Model cost at call 160 : 371.2134 -#> Model cost at call 164 : 371.2134 -#> Model cost at call 167 : 371.2134 -#> IRLS based on variance estimates for each observed variable -#> Initial variance estimates are: -#> parent m1 -#> 11.552581 7.421226 -#> Model cost at call 186 : 40 -#> Model cost at call 188 : 40 -#> Model cost at call 194 : 39.99562 -#> Model cost at call 195 : 39.99562 -#> Model cost at call 201 : 39.9956 -#> Model cost at call 203 : 39.99528 -#> Model cost at call 205 : 39.99528 -#> Model cost at call 207 : 39.99528 -#> Model cost at call 209 : 39.99515 -#> Model cost at call 211 : 39.99515 -#> Model cost at call 214 : 39.99515 -#> Model cost at call 215 : 39.99505 -#> Model cost at call 217 : 39.99505 -#> Model cost at call 219 : 39.99505 -#> Model cost at call 220 : 39.99489 -#> Model cost at call 222 : 39.99489 -#> Model cost at call 224 : 39.99489 -#> Model cost at call 225 : 39.99479 -#> Model cost at call 227 : 39.99479 -#> Model cost at call 231 : 39.99467 -#> Model cost at call 234 : 39.99467 -#> Model cost at call 235 : 39.99467 -#> Model cost at call 236 : 39.99458 -#> Model cost at call 238 : 39.99458 -#> Model cost at call 239 : 39.99458 -#> Model cost at call 241 : 39.99452 -#> Model cost at call 242 : 39.99444 -#> Model cost at call 243 : 39.99433 -#> Model cost at call 245 : 39.99433 -#> Model cost at call 248 : 39.99383 -#> Model cost at call 250 : 39.99383 -#> Model cost at call 251 : 39.99383 -#> Model cost at call 252 : 39.99383 -#> Model cost at call 253 : 39.9935 -#> Model cost at call 254 : 39.99309 -#> Model cost at call 256 : 39.99309 -#> Model cost at call 261 : 39.99295 -#> Model cost at call 264 : 39.99295 -#> Model cost at call 267 : 39.99281 -#> Model cost at call 272 : 39.99281 -#> Model cost at call 273 : 39.99278 -#> Model cost at call 276 : 39.99278 -#> Model cost at call 278 : 39.99278 -#> Model cost at call 279 : 39.99278 -#> Model cost at call 281 : 39.99278 -#> Model cost at call 283 : 39.99278 -#> Model cost at call 286 : 39.99278 -#> Model cost at call 289 : 39.99278 -#> Model cost at call 290 : 39.99278 -#> Iteration 1 yields variance estimates: -#> parent m1 -#> 11.573172 7.407968 -#> Sum of squared differences to last variance estimates: 1.5e-05 -#> Iteration 2 yields variance estimates: -#> parent m1 -#> 11.573405 7.407846 -#> Sum of squared differences to last variance estimates: 1.7e-09 -#> Optimisation by method Port successfully terminated.</div><div class='input'><span class='fu'>summary</span>(<span class='no'>f.irls</span>)</div><div class='output co'>#> mkin version: 0.9.44.9000 +#> 120 m1 33.31 2.879e+01 4.520e+00</div><div class='input'><span class='no'>f.irls</span> <span class='kw'><-</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'>#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 15:19:50 2016 -#> Date of summary: Fri Nov 18 15:19:50 2016 +#> Date of fit: Fri Nov 18 15:36:24 2016 +#> Date of summary: Fri Nov 18 15:36:24 2016 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -1524,7 +686,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 486 model solutions performed in 2.052 s +#> Fitted with method Port using 486 model solutions performed in 2.047 s #> #> Weighting: none then iterative reweighting method obs #> @@ -1633,62 +795,11 @@ #> 100 m1 31.04 3.199e+01 -9.497e-01 2.722 #> 100 m1 33.13 3.199e+01 1.140e+00 2.722 #> 120 m1 25.15 2.881e+01 -3.659e+00 2.722 -#> 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'><-</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>)</div><div class='output co'>#> Model cost at call 1 : 19.80132 -#> Model cost at call 2 : 19.80132 -#> Model cost at call 6 : 10.68776 -#> Model cost at call 12 : 7.14353 -#> Model cost at call 13 : 7.143529 -#> Model cost at call 15 : 7.143511 -#> Model cost at call 18 : 2.189024 -#> Model cost at call 20 : 2.189019 -#> Model cost at call 23 : 1.587262 -#> Model cost at call 25 : 1.587261 -#> Model cost at call 26 : 1.58726 -#> Model cost at call 28 : 1.036794 -#> Model cost at call 29 : 1.036794 -#> Model cost at call 30 : 1.036793 -#> Model cost at call 34 : 0.4939937 -#> Model cost at call 35 : 0.4939937 -#> Model cost at call 38 : 0.4939936 -#> Model cost at call 39 : 0.4018506 -#> Model cost at call 43 : 0.4018505 -#> Model cost at call 45 : 0.3797853 -#> Model cost at call 51 : 0.3669779 -#> Model cost at call 55 : 0.3669778 -#> Model cost at call 56 : 0.3585654 -#> Model cost at call 57 : 0.3533252 -#> Model cost at call 62 : 0.3502505 -#> Model cost at call 64 : 0.3502505 -#> Model cost at call 66 : 0.3502505 -#> Model cost at call 67 : 0.3501535 -#> Model cost at call 72 : 0.3501187 -#> Model cost at call 74 : 0.3501187 -#> Model cost at call 75 : 0.3501187 -#> Model cost at call 77 : 0.3500378 -#> Model cost at call 79 : 0.3500378 -#> Model cost at call 83 : 0.349831 -#> Model cost at call 88 : 0.3494286 -#> Model cost at call 93 : 0.3488101 -#> Model cost at call 98 : 0.3481444 -#> Model cost at call 103 : 0.3478528 -#> Model cost at call 108 : 0.3478092 -#> Model cost at call 109 : 0.3478092 -#> Model cost at call 113 : 0.347807 -#> Model cost at call 116 : 0.347807 -#> Model cost at call 117 : 0.347807 -#> Model cost at call 119 : 0.347807 -#> Model cost at call 120 : 0.347807 -#> Model cost at call 125 : 0.347807 -#> Model cost at call 126 : 0.347807 -#> Model cost at call 128 : 0.347807 -#> Model cost at call 137 : 0.347807 -#> Model cost at call 148 : 0.347807 -#> Model cost at call 152 : 0.347807 -#> Model cost at call 154 : 0.347807 -#> Optimisation by method Port successfully terminated.</div><div class='input'><span class='fu'>summary</span>(<span class='no'>f.w.mean</span>)</div><div class='output co'>#> mkin version: 0.9.44.9000 +#> 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'><-</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'>#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 15:19:50 2016 -#> Date of summary: Fri Nov 18 15:19:50 2016 +#> Date of fit: Fri Nov 18 15:36:25 2016 +#> Date of summary: Fri Nov 18 15:36:25 2016 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -1696,7 +807,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 155 model solutions performed in 0.636 s +#> Fitted with method Port using 155 model solutions performed in 0.653 s #> #> Weighting: mean #> @@ -1805,68 +916,12 @@ #> 100 m1 31.04 31.996124 -0.956124 #> 100 m1 33.13 31.996124 1.133876 #> 120 m1 25.15 28.824128 -3.674128 -#> 120 m1 33.31 28.824128 4.485872</div><div class='input'><span class='no'>f.w.value</span> <span class='kw'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFO_SFO.ff</span>, <span class='fu'>subset</span>(<span class='no'>FOCUS_2006_D</span>, <span class='no'>value</span> <span class='kw'>!=</span> <span class='fl'>0</span>), <span class='kw'>err</span> <span class='kw'>=</span> <span class='st'>"value"</span>)</div><div class='output co'>#> Model cost at call 1 : 11.21571 -#> Model cost at call 2 : 11.21571 -#> Model cost at call 3 : 11.21571 -#> Model cost at call 8 : 11.12803 -#> Model cost at call 10 : 11.128 -#> Model cost at call 13 : 10.88016 -#> Model cost at call 15 : 10.88016 -#> Model cost at call 18 : 10.58819 -#> Model cost at call 20 : 10.58819 -#> Model cost at call 23 : 9.71699 -#> Model cost at call 24 : 7.794026 -#> Model cost at call 26 : 7.794026 -#> Model cost at call 31 : 6.89734 -#> Model cost at call 33 : 6.897337 -#> Model cost at call 36 : 5.2239 -#> Model cost at call 37 : 3.357735 -#> Model cost at call 41 : 3.357733 -#> Model cost at call 44 : 2.982323 -#> Model cost at call 46 : 2.982322 -#> Model cost at call 49 : 2.703946 -#> Model cost at call 50 : 2.080395 -#> Model cost at call 55 : 0.5307591 -#> Model cost at call 56 : 0.5307591 -#> Model cost at call 57 : 0.5307591 -#> Model cost at call 59 : 0.5307584 -#> Model cost at call 60 : 0.3240066 -#> Model cost at call 61 : 0.3240066 -#> Model cost at call 64 : 0.3240066 -#> Model cost at call 65 : 0.2601108 -#> Model cost at call 70 : 0.2414055 -#> Model cost at call 74 : 0.2414055 -#> Model cost at call 75 : 0.2404251 -#> Model cost at call 80 : 0.2404087 -#> Model cost at call 82 : 0.2404087 -#> Model cost at call 85 : 0.2404054 -#> Model cost at call 88 : 0.2404054 -#> Model cost at call 92 : 0.2403931 -#> Model cost at call 93 : 0.2403784 -#> Model cost at call 98 : 0.2403784 -#> Model cost at call 99 : 0.2403322 -#> Model cost at call 104 : 0.2402188 -#> Model cost at call 109 : 0.2400275 -#> Model cost at call 114 : 0.239844 -#> Model cost at call 119 : 0.2397153 -#> Model cost at call 120 : 0.2397153 -#> Model cost at call 124 : 0.2396978 -#> Model cost at call 126 : 0.2396978 -#> Model cost at call 130 : 0.239697 -#> Model cost at call 131 : 0.2396963 -#> Model cost at call 133 : 0.2396963 -#> Model cost at call 138 : 0.2396962 -#> Model cost at call 139 : 0.2396962 -#> Model cost at call 141 : 0.2396962 -#> Model cost at call 144 : 0.2396962 -#> Model cost at call 147 : 0.2396962 -#> Model cost at call 156 : 0.2396962 -#> Model cost at call 167 : 0.2396962 -#> Model cost at call 169 : 0.2396962 -#> Optimisation by method Port successfully terminated.</div><div class='input'><span class='fu'>summary</span>(<span class='no'>f.w.value</span>)</div><div class='output co'>#> mkin version: 0.9.44.9000 +#> 120 m1 33.31 28.824128 4.485872</div><div class='input'><span class='no'>f.w.value</span> <span class='kw'><-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFO_SFO.ff</span>, <span class='fu'>subset</span>(<span class='no'>FOCUS_2006_D</span>, <span class='no'>value</span> <span class='kw'>!=</span> <span class='fl'>0</span>), <span class='kw'>err</span> <span class='kw'>=</span> <span class='st'>"value"</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.value</span>)</div><div class='output co'>#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 15:19:51 2016 -#> Date of summary: Fri Nov 18 15:19:51 2016 +#> Date of fit: Fri Nov 18 15:36:26 2016 +#> Date of summary: Fri Nov 18 15:36:26 2016 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -1874,7 +929,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 174 model solutions performed in 0.789 s +#> Fitted with method Port using 174 model solutions performed in 0.708 s #> #> Weighting: manual #> @@ -1984,139 +1039,11 @@ <span class='no'>dw</span> <span class='kw'><-</span> <span class='no'>FOCUS_2006_D</span> <span class='no'>errors</span> <span class='kw'><-</span> <span class='fu'>c</span>(<span class='kw'>parent</span> <span class='kw'>=</span> <span class='fl'>2</span>, <span class='kw'>m1</span> <span class='kw'>=</span> <span class='fl'>1</span>) <span class='no'>dw</span>$<span class='no'>err.man</span> <span class='kw'><-</span> <span class='no'>errors</span>[<span class='no'>FOCUS_2006_D</span>$<span class='no'>name</span>] -<span class='no'>f.w.man</span> <span class='kw'><-</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>)</div><div class='output co'>#> Model cost at call 1 : 3949.676 -#> Model cost at call 2 : 3949.676 -#> Model cost at call 5 : 3949.676 -#> Model cost at call 6 : 2252.859 -#> Model cost at call 8 : 2252.858 -#> Model cost at call 9 : 2252.826 -#> Model cost at call 13 : 1567.343 -#> Model cost at call 14 : 1567.342 -#> Model cost at call 15 : 1567.333 -#> Model cost at call 18 : 1041.524 -#> Model cost at call 19 : 1041.522 -#> Model cost at call 24 : 840.4649 -#> Model cost at call 26 : 840.4646 -#> Model cost at call 29 : 782.303 -#> Model cost at call 31 : 782.3028 -#> Model cost at call 34 : 664.539 -#> Model cost at call 36 : 664.5389 -#> Model cost at call 40 : 615.7908 -#> Model cost at call 42 : 615.7907 -#> Model cost at call 45 : 569.5971 -#> Model cost at call 47 : 569.597 -#> Model cost at call 50 : 517.3175 -#> Model cost at call 52 : 517.3173 -#> Model cost at call 56 : 464.8158 -#> Model cost at call 58 : 464.8157 -#> Model cost at call 62 : 433.0031 -#> Model cost at call 64 : 433.003 -#> Model cost at call 67 : 423.7407 -#> Model cost at call 69 : 423.7406 -#> Model cost at call 70 : 423.7392 -#> Model cost at call 72 : 346.2781 -#> Model cost at call 74 : 346.278 -#> Model cost at call 75 : 346.2779 -#> Model cost at call 78 : 334.5399 -#> Model cost at call 80 : 334.5398 -#> Model cost at call 83 : 324.139 -#> Model cost at call 85 : 324.1389 -#> Model cost at call 88 : 319.7514 -#> Model cost at call 90 : 319.7514 -#> Model cost at call 94 : 300.9426 -#> Model cost at call 96 : 300.9425 -#> Model cost at call 100 : 295.8803 -#> Model cost at call 102 : 295.8803 -#> Model cost at call 105 : 290.3288 -#> Model cost at call 107 : 290.3287 -#> Model cost at call 111 : 284.3257 -#> Model cost at call 113 : 284.3257 -#> Model cost at call 116 : 282.3972 -#> Model cost at call 118 : 282.3972 -#> Model cost at call 122 : 273.7385 -#> Model cost at call 124 : 273.7385 -#> Model cost at call 128 : 271.8379 -#> Model cost at call 130 : 271.8379 -#> Model cost at call 133 : 270.064 -#> Model cost at call 135 : 270.064 -#> Model cost at call 138 : 268.0107 -#> Model cost at call 140 : 268.0107 -#> Model cost at call 144 : 265.6194 -#> Model cost at call 146 : 265.6194 -#> Model cost at call 148 : 265.6194 -#> Model cost at call 149 : 263.4825 -#> Model cost at call 151 : 263.4825 -#> Model cost at call 153 : 263.4824 -#> Model cost at call 154 : 262.0988 -#> Model cost at call 156 : 262.0988 -#> Model cost at call 160 : 260.7078 -#> Model cost at call 162 : 260.7078 -#> Model cost at call 165 : 259.9453 -#> Model cost at call 167 : 259.9453 -#> Model cost at call 170 : 258.9623 -#> Model cost at call 172 : 258.9623 -#> Model cost at call 174 : 258.962 -#> Model cost at call 176 : 258.0119 -#> Model cost at call 178 : 258.0119 -#> Model cost at call 180 : 258.0119 -#> Model cost at call 181 : 257.8698 -#> Model cost at call 183 : 257.8698 -#> Model cost at call 186 : 256.8608 -#> Model cost at call 188 : 256.8608 -#> Model cost at call 190 : 256.8608 -#> Model cost at call 191 : 256.2306 -#> Model cost at call 193 : 256.2306 -#> Model cost at call 195 : 256.2305 -#> Model cost at call 196 : 255.7119 -#> Model cost at call 198 : 255.7118 -#> Model cost at call 201 : 255.3323 -#> Model cost at call 203 : 255.3323 -#> Model cost at call 205 : 255.3323 -#> Model cost at call 206 : 254.6653 -#> Model cost at call 208 : 254.6653 -#> Model cost at call 211 : 254.3984 -#> Model cost at call 213 : 254.3984 -#> Model cost at call 216 : 253.3199 -#> Model cost at call 218 : 253.3199 -#> Model cost at call 220 : 253.3198 -#> Model cost at call 221 : 252.4845 -#> Model cost at call 223 : 252.4845 -#> Model cost at call 225 : 252.4845 -#> Model cost at call 226 : 251.6917 -#> Model cost at call 229 : 251.6917 -#> Model cost at call 230 : 251.6917 -#> Model cost at call 233 : 251.0189 -#> Model cost at call 235 : 251.0189 -#> Model cost at call 238 : 250.6912 -#> Model cost at call 240 : 250.6912 -#> Model cost at call 243 : 250.5546 -#> Model cost at call 245 : 250.5546 -#> Model cost at call 248 : 250.466 -#> Model cost at call 249 : 250.3744 -#> Model cost at call 250 : 249.9681 -#> Model cost at call 251 : 249.2215 -#> Model cost at call 260 : 248.919 -#> Model cost at call 264 : 248.919 -#> Model cost at call 265 : 248.8876 -#> Model cost at call 267 : 248.8876 -#> Model cost at call 270 : 248.8521 -#> Model cost at call 271 : 248.8178 -#> Model cost at call 272 : 248.6837 -#> Model cost at call 273 : 248.5989 -#> Model cost at call 276 : 248.5989 -#> Model cost at call 278 : 248.5935 -#> Model cost at call 280 : 248.5935 -#> Model cost at call 282 : 248.5935 -#> Model cost at call 283 : 248.5902 -#> Model cost at call 284 : 248.5902 -#> Model cost at call 289 : 248.5902 -#> Model cost at call 298 : 248.5902 -#> Model cost at call 309 : 248.5902 -#> Model cost at call 311 : 248.5902 -#> Optimisation by method Port successfully terminated.</div><div class='input'><span class='fu'>summary</span>(<span class='no'>f.w.man</span>)</div><div class='output co'>#> mkin version: 0.9.44.9000 +<span class='no'>f.w.man</span> <span class='kw'><-</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'>#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 15:19:53 2016 -#> Date of summary: Fri Nov 18 15:19:53 2016 +#> Date of fit: Fri Nov 18 15:36:27 2016 +#> Date of summary: Fri Nov 18 15:36:27 2016 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -2124,7 +1051,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 316 model solutions performed in 1.337 s +#> Fitted with method Port using 316 model solutions performed in 1.288 s #> #> Weighting: manual #> @@ -2233,211 +1160,12 @@ #> 100 m1 31.04 31.969288 -0.929288 2 #> 100 m1 33.13 31.969288 1.160712 2 #> 120 m1 25.15 28.760615 -3.610615 2 -#> 120 m1 33.31 28.760615 4.549385 2</div><div class='input'><span class='no'>f.w.man.irls</span> <span class='kw'><-</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'>reweight.method</span> <span class='kw'>=</span> <span class='st'>"obs"</span>)</div><div class='output co'>#> Model cost at call 1 : 3949.676 -#> Model cost at call 2 : 3949.676 -#> Model cost at call 5 : 3949.676 -#> Model cost at call 6 : 2252.859 -#> Model cost at call 8 : 2252.858 -#> Model cost at call 9 : 2252.826 -#> Model cost at call 13 : 1567.343 -#> Model cost at call 14 : 1567.342 -#> Model cost at call 15 : 1567.333 -#> Model cost at call 18 : 1041.524 -#> Model cost at call 19 : 1041.522 -#> Model cost at call 24 : 840.4649 -#> Model cost at call 26 : 840.4646 -#> Model cost at call 29 : 782.303 -#> Model cost at call 31 : 782.3028 -#> Model cost at call 34 : 664.539 -#> Model cost at call 36 : 664.5389 -#> Model cost at call 40 : 615.7908 -#> Model cost at call 42 : 615.7907 -#> Model cost at call 45 : 569.5971 -#> Model cost at call 47 : 569.597 -#> Model cost at call 50 : 517.3175 -#> Model cost at call 52 : 517.3173 -#> Model cost at call 56 : 464.8158 -#> Model cost at call 58 : 464.8157 -#> Model cost at call 62 : 433.0031 -#> Model cost at call 64 : 433.003 -#> Model cost at call 67 : 423.7407 -#> Model cost at call 69 : 423.7406 -#> Model cost at call 70 : 423.7392 -#> Model cost at call 72 : 346.2781 -#> Model cost at call 74 : 346.278 -#> Model cost at call 75 : 346.2779 -#> Model cost at call 78 : 334.5399 -#> Model cost at call 80 : 334.5398 -#> Model cost at call 83 : 324.139 -#> Model cost at call 85 : 324.1389 -#> Model cost at call 88 : 319.7514 -#> Model cost at call 90 : 319.7514 -#> Model cost at call 94 : 300.9426 -#> Model cost at call 96 : 300.9425 -#> Model cost at call 100 : 295.8803 -#> Model cost at call 102 : 295.8803 -#> Model cost at call 105 : 290.3288 -#> Model cost at call 107 : 290.3287 -#> Model cost at call 111 : 284.3257 -#> Model cost at call 113 : 284.3257 -#> Model cost at call 116 : 282.3972 -#> Model cost at call 118 : 282.3972 -#> Model cost at call 122 : 273.7385 -#> Model cost at call 124 : 273.7385 -#> Model cost at call 128 : 271.8379 -#> Model cost at call 130 : 271.8379 -#> Model cost at call 133 : 270.064 -#> Model cost at call 135 : 270.064 -#> Model cost at call 138 : 268.0107 -#> Model cost at call 140 : 268.0107 -#> Model cost at call 144 : 265.6194 -#> Model cost at call 146 : 265.6194 -#> Model cost at call 148 : 265.6194 -#> Model cost at call 149 : 263.4825 -#> Model cost at call 151 : 263.4825 -#> Model cost at call 153 : 263.4824 -#> Model cost at call 154 : 262.0988 -#> Model cost at call 156 : 262.0988 -#> Model cost at call 160 : 260.7078 -#> Model cost at call 162 : 260.7078 -#> Model cost at call 165 : 259.9453 -#> Model cost at call 167 : 259.9453 -#> Model cost at call 170 : 258.9623 -#> Model cost at call 172 : 258.9623 -#> Model cost at call 174 : 258.962 -#> Model cost at call 176 : 258.0119 -#> Model cost at call 178 : 258.0119 -#> Model cost at call 180 : 258.0119 -#> Model cost at call 181 : 257.8698 -#> Model cost at call 183 : 257.8698 -#> Model cost at call 186 : 256.8608 -#> Model cost at call 188 : 256.8608 -#> Model cost at call 190 : 256.8608 -#> Model cost at call 191 : 256.2306 -#> Model cost at call 193 : 256.2306 -#> Model cost at call 195 : 256.2305 -#> Model cost at call 196 : 255.7119 -#> Model cost at call 198 : 255.7118 -#> Model cost at call 201 : 255.3323 -#> Model cost at call 203 : 255.3323 -#> Model cost at call 205 : 255.3323 -#> Model cost at call 206 : 254.6653 -#> Model cost at call 208 : 254.6653 -#> Model cost at call 211 : 254.3984 -#> Model cost at call 213 : 254.3984 -#> Model cost at call 216 : 253.3199 -#> Model cost at call 218 : 253.3199 -#> Model cost at call 220 : 253.3198 -#> Model cost at call 221 : 252.4845 -#> Model cost at call 223 : 252.4845 -#> Model cost at call 225 : 252.4845 -#> Model cost at call 226 : 251.6917 -#> Model cost at call 229 : 251.6917 -#> Model cost at call 230 : 251.6917 -#> Model cost at call 233 : 251.0189 -#> Model cost at call 235 : 251.0189 -#> Model cost at call 238 : 250.6912 -#> Model cost at call 240 : 250.6912 -#> Model cost at call 243 : 250.5546 -#> Model cost at call 245 : 250.5546 -#> Model cost at call 248 : 250.466 -#> Model cost at call 249 : 250.3744 -#> Model cost at call 250 : 249.9681 -#> Model cost at call 251 : 249.2215 -#> Model cost at call 260 : 248.919 -#> Model cost at call 264 : 248.919 -#> Model cost at call 265 : 248.8876 -#> Model cost at call 267 : 248.8876 -#> Model cost at call 270 : 248.8521 -#> Model cost at call 271 : 248.8178 -#> Model cost at call 272 : 248.6837 -#> Model cost at call 273 : 248.5989 -#> Model cost at call 276 : 248.5989 -#> Model cost at call 278 : 248.5935 -#> Model cost at call 280 : 248.5935 -#> Model cost at call 282 : 248.5935 -#> Model cost at call 283 : 248.5902 -#> Model cost at call 284 : 248.5902 -#> Model cost at call 289 : 248.5902 -#> Model cost at call 298 : 248.5902 -#> Model cost at call 309 : 248.5902 -#> Model cost at call 311 : 248.5902 -#> IRLS based on variance estimates for each observed variable -#> Initial variance estimates are: -#> parent m1 -#> 11.536305 7.443046 -#> Model cost at call 317 : 40 -#> Model cost at call 319 : 40 -#> Model cost at call 324 : 39.98891 -#> Model cost at call 325 : 39.9889 -#> Model cost at call 327 : 39.98886 -#> Model cost at call 331 : 39.98871 -#> Model cost at call 333 : 39.97254 -#> Model cost at call 336 : 39.97253 -#> Model cost at call 338 : 39.96929 -#> Model cost at call 340 : 39.96929 -#> Model cost at call 344 : 39.96849 -#> Model cost at call 346 : 39.96849 -#> Model cost at call 348 : 39.96849 -#> Model cost at call 349 : 39.96774 -#> Model cost at call 351 : 39.96774 -#> Model cost at call 353 : 39.96774 -#> Model cost at call 354 : 39.96714 -#> Model cost at call 356 : 39.96714 -#> Model cost at call 359 : 39.96617 -#> Model cost at call 361 : 39.96617 -#> Model cost at call 364 : 39.96606 -#> Model cost at call 366 : 39.96606 -#> Model cost at call 369 : 39.96551 -#> Model cost at call 371 : 39.96551 -#> Model cost at call 372 : 39.96551 -#> Model cost at call 375 : 39.96527 -#> Model cost at call 378 : 39.96527 -#> Model cost at call 379 : 39.96527 -#> Model cost at call 380 : 39.96525 -#> Model cost at call 382 : 39.96525 -#> Model cost at call 385 : 39.9651 -#> Model cost at call 387 : 39.9651 -#> Model cost at call 388 : 39.9651 -#> Model cost at call 390 : 39.96502 -#> Model cost at call 393 : 39.96502 -#> Model cost at call 396 : 39.96502 -#> Model cost at call 397 : 39.96467 -#> Model cost at call 398 : 39.96422 -#> Model cost at call 399 : 39.9624 -#> Model cost at call 400 : 39.95909 -#> Model cost at call 402 : 39.95909 -#> Model cost at call 405 : 39.9571 -#> Model cost at call 407 : 39.95709 -#> Model cost at call 413 : 39.95479 -#> Model cost at call 414 : 39.95479 -#> Model cost at call 415 : 39.95479 -#> Model cost at call 417 : 39.95479 -#> Model cost at call 419 : 39.95398 -#> Model cost at call 422 : 39.95398 -#> Model cost at call 424 : 39.95387 -#> Model cost at call 429 : 39.95384 -#> Model cost at call 432 : 39.95384 -#> Model cost at call 435 : 39.95384 -#> Model cost at call 437 : 39.95384 -#> Model cost at call 438 : 39.95384 -#> Model cost at call 446 : 39.95384 -#> Model cost at call 455 : 39.95384 -#> Model cost at call 469 : 39.95384 -#> Model cost at call 473 : 39.95384 -#> Iteration 1 yields variance estimates: -#> parent m1 -#> 11.572891 7.408116 -#> Sum of squared differences to last variance estimates: 7e-05 -#> Iteration 2 yields variance estimates: -#> parent m1 -#> 11.573402 7.407847 -#> Sum of squared differences to last variance estimates: 8.1e-09 -#> Optimisation by method Port successfully terminated.</div><div class='input'><span class='fu'>summary</span>(<span class='no'>f.w.man.irls</span>)</div><div class='output co'>#> mkin version: 0.9.44.9000 +#> 120 m1 33.31 28.760615 4.549385 2</div><div class='input'><span class='no'>f.w.man.irls</span> <span class='kw'><-</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='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'>#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 18 15:19:55 2016 -#> Date of summary: Fri Nov 18 15:19:55 2016 +#> Date of fit: Fri Nov 18 15:36:30 2016 +#> Date of summary: Fri Nov 18 15:36:30 2016 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -2445,7 +1173,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 648 model solutions performed in 2.716 s +#> Fitted with method Port using 648 model solutions performed in 2.694 s #> #> Weighting: manual then iterative reweighting method obs #> |