- using R version 2.14.1 (2011-12-22)
- using platform: i386-apple-darwin9.8.0 (32-bit)
- using session charset: ASCII
- checking for file 'pomp/DESCRIPTION' ... OK
- checking extension type ... Package
- this is package 'pomp' version '0.40-2'
- checking package namespace information ... OK
- checking package dependencies ... OK
- checking if this is a source package ... OK
- checking if there is a namespace ... OK
- checking for executable files ... OK
- checking whether package 'pomp' can be installed ... OK
- checking installed package size ... OK
- checking package directory ... OK
- checking for portable file names ... OK
- checking for sufficient/correct file permissions ... OK
- checking DESCRIPTION meta-information ... OK
- checking top-level files ... OK
- checking index information ... OK
- checking package subdirectories ... OK
- checking R files for non-ASCII characters ... OK
- checking R files for syntax errors ... OK
- loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
- loading checks for arch 'x86_64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
- checking for unstated dependencies in R code ... OK
- checking S3 generic/method consistency ... OK
- checking replacement functions ... OK
- checking foreign function calls ... OK
- checking R code for possible problems ... OK
- checking Rd files ... OK
- checking Rd metadata ... OK
- checking Rd cross-references ... OK
- checking for missing documentation entries ... OK
- checking for code/documentation mismatches ... OK
- checking Rd \usage sections ... OK
- checking Rd contents ... OK
- checking for unstated dependencies in examples ... OK
- checking contents of 'data' directory ... OK
- checking data for non-ASCII characters ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking line endings in C/C++/Fortran sources/headers ... OK
- checking line endings in Makefiles ... OK
- checking for portable compilation flags in Makevars ... OK
- checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
- checking compiled code ... OK
- checking sizes of PDF files under 'inst/doc' ... OK
- checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x86_64' ... OK
- checking for unstated dependencies in tests ... OK
- checking tests ...
** running tests for arch 'i386' OK
Running 'examples.R'
Running 'fhn.R'
Comparing 'fhn.Rout' to 'fhn.Rout.save' ...99,100c99,100
< V -1.3052992 1.273985078
< R -0.5591627 -0.006931772
---
> V -1.3052919 1.27398107
> R -0.5591608 -0.00692014
105,106c105,106
< V -1.4459110 1.19170996
< R -0.5707845 0.02731362
---
> V -1.4459045 1.19170161
> R -0.5707824 0.02732499
111,112c111,112
< V -1.4714085 1.32438380
< R -0.5861084 0.06163235
---
> V -1.4714039 1.32437192
> R -0.5861061 0.06164339
Running 'filtfail.R'
Comparing 'filtfail.Rout' to 'filtfail.Rout.save' ... OK
Running 'gillespie.R'
Comparing 'gillespie.Rout' to 'gillespie.Rout.save' ... OK
Running 'gompertz.R'
Comparing 'gompertz.Rout' to 'gompertz.Rout.save' ... OK
Running 'logistic.R'
Comparing 'logistic.Rout' to 'logistic.Rout.save' ... OK
Running 'ou2-bsmc.R'
Comparing 'ou2-bsmc.Rout' to 'ou2-bsmc.Rout.save' ...70c70
< [1] -4.705647
---
> [1] -30.90868
77c77
< [1] -4.250385
---
> [1] -30.27596
Running 'ou2-forecast.R'
Comparing 'ou2-forecast.Rout' to 'ou2-forecast.Rout.save' ... OK
Running 'ou2-icfit.R'
Comparing 'ou2-icfit.Rout' to 'ou2-icfit.Rout.save' ... OK
Running 'ou2-kalman.R'
Comparing 'ou2-kalman.Rout' to 'ou2-kalman.Rout.save' ... OK
Running 'ou2-mif.R'
Comparing 'ou2-mif.Rout' to 'ou2-mif.Rout.save' ... OK
Running 'ou2-nlf.R'
Comparing 'ou2-nlf.Rout' to 'ou2-nlf.Rout.save' ... OK
Running 'ou2-pmcmc.R'
Comparing 'ou2-pmcmc.Rout' to 'ou2-pmcmc.Rout.save' ... OK
Running 'ou2-probe.R'
Comparing 'ou2-probe.Rout' to 'ou2-probe.Rout.save' ...178c178
< [1] 1.221245e-15
---
> [1] 1.110223e-16
208c208
< [1] 91.60465
---
> [1] 93.95585
Running 'ou2-procmeas.R'
Comparing 'ou2-procmeas.Rout' to 'ou2-procmeas.Rout.save' ... OK
Running 'ou2-simulate.R'
Comparing 'ou2-simulate.Rout' to 'ou2-simulate.Rout.save' ... OK
Running 'ou2-trajmatch.R'
Comparing 'ou2-trajmatch.Rout' to 'ou2-trajmatch.Rout.save' ... OK
Running 'pfilter.R'
Comparing 'pfilter.Rout' to 'pfilter.Rout.save' ... OK
Running 'pomppomp.R'
Comparing 'pomppomp.Rout' to 'pomppomp.Rout.save' ... OK
Running 'ricker-probe.R'
Comparing 'ricker-probe.Rout' to 'ricker-probe.Rout.save' ...134c134
< 1.000000e+00 -3.470661e-18 -1.108330e-18
---
> 1.000000e+00 2.308125e-18 9.896164e-19
177c177
< 1.000000e+00 -3.470661e-18 -1.108330e-18 3.679493e+03 -1.275470e+03
---
> 1.000000e+00 2.308125e-18 9.896164e-19 3.679493e+03 -1.275470e+03
261c261
< 1.000000e+00 -3.470661e-18 -1.108330e-18
---
> 1.000000e+00 2.308125e-18 9.896164e-19
296c296
< 12.309 0.587 12.896
---
> 7.680 0.008 7.713
355c355
< 9.449 0.402 9.851
---
> 5.668 0.000 5.683
514c514
< [1] 30.22958
---
> [1] 29.82456
Running 'ricker-spect.R'
Comparing 'ricker-spect.Rout' to 'ricker-spect.Rout.save' ... OK
Running 'ricker.R'
Comparing 'ricker.Rout' to 'ricker.Rout.save' ...94,95c94,95
< HI-REDUCTION 32 -18.135507 -19.025697
< HI-REDUCTION 34 -18.406162 -19.025697
---
> HI-REDUCTION 32 -18.135507 -19.025728
> HI-REDUCTION 34 -18.406162 -19.025728
98c98
< HI-REDUCTION 40 -19.025697 -19.711127
---
> HI-REDUCTION 40 -19.025728 -19.711127
104c104
< LO-REDUCTION 58 -19.213270 -19.858319
---
> LO-REDUCTION 58 -19.213348 -19.858319
132c132
< LO-REDUCTION 144 -19.541821 -20.036526
---
> LO-REDUCTION 144 -19.541768 -20.036526
137,213c137,204
< HI-REDUCTION 157 -19.857050 -20.036526
< SHRINK 162 -19.619339 -20.036526
< LO-REDUCTION 164 -19.714203 -20.036526
< LO-REDUCTION 166 -19.899421 -20.036526
< SHRINK 171 -19.494052 -20.036526
< LO-REDUCTION 173 -19.656942 -20.039593
< LO-REDUCTION 175 -19.793718 -20.039593
< REFLECTION 177 -19.803811 -20.057243
< HI-REDUCTION 179 -19.811405 -20.057243
< SHRINK 184 -19.651680 -20.057243
< LO-REDUCTION 186 -19.705462 -20.057243
< LO-REDUCTION 188 -19.743525 -20.057243
< SHRINK 193 -19.557487 -20.057243
< LO-REDUCTION 195 -19.597290 -20.057243
< LO-REDUCTION 197 -19.783177 -20.057243
< LO-REDUCTION 199 -19.862439 -20.057243
< LO-REDUCTION 201 -19.880573 -20.057243
< SHRINK 206 -19.634931 -20.057243
< LO-REDUCTION 208 -19.689080 -20.057243
< LO-REDUCTION 210 -19.794176 -20.057243
< HI-REDUCTION 212 -19.885099 -20.057243
< LO-REDUCTION 214 -19.899959 -20.057243
< SHRINK 219 -19.593439 -20.057243
< LO-REDUCTION 221 -19.594954 -20.057243
< LO-REDUCTION 223 -19.961413 -20.057243
< SHRINK 228 -19.818816 -20.057243
< HI-REDUCTION 230 -19.877892 -20.057243
< SHRINK 235 -19.797069 -20.057243
< LO-REDUCTION 237 -19.841876 -20.115805
< LO-REDUCTION 239 -19.892766 -20.115805
< SHRINK 244 -19.887635 -20.115805
< HI-REDUCTION 246 -19.934675 -20.237392
< SHRINK 251 -20.008890 -20.237392
< REFLECTION 253 -20.036489 -20.259433
< HI-REDUCTION 255 -20.087695 -20.259433
< LO-REDUCTION 257 -20.207204 -20.259433
< SHRINK 262 -19.984461 -20.259433
< SHRINK 267 -19.984799 -20.259433
< SHRINK 272 -19.845300 -20.259433
< LO-REDUCTION 274 -19.889364 -20.259433
< LO-REDUCTION 276 -19.999564 -20.259433
< HI-REDUCTION 278 -20.006411 -20.259433
< LO-REDUCTION 280 -20.138017 -20.259433
< HI-REDUCTION 282 -20.141223 -20.259433
< HI-REDUCTION 284 -20.146834 -20.259433
< SHRINK 289 -19.906087 -20.259433
< LO-REDUCTION 291 -20.123761 -20.268866
< LO-REDUCTION 293 -20.151617 -20.268866
< LO-REDUCTION 295 -20.192722 -20.268866
< SHRINK 300 -20.129055 -20.268866
< HI-REDUCTION 302 -20.148408 -20.268866
< LO-REDUCTION 304 -20.153190 -20.268866
< REFLECTION 306 -20.229173 -20.340255
< HI-REDUCTION 308 -20.236442 -20.340255
< HI-REDUCTION 310 -20.253248 -20.340255
< HI-REDUCTION 312 -20.268866 -20.378898
< REFLECTION 314 -20.272843 -20.386470
< HI-REDUCTION 316 -20.309205 -20.386470
< SHRINK 321 -20.245172 -20.398172
< LO-REDUCTION 323 -20.302912 -20.398172
< LO-REDUCTION 325 -20.382344 -20.439412
< HI-REDUCTION 327 -20.386470 -20.439412
< LO-REDUCTION 329 -20.398172 -20.439412
< HI-REDUCTION 331 -20.403031 -20.439412
< SHRINK 336 -20.410905 -20.457839
< REFLECTION 338 -20.439412 -20.477653
< LO-REDUCTION 340 -20.455109 -20.477653
< SHRINK 345 -20.345472 -20.477653
< LO-REDUCTION 347 -20.389889 -20.482046
< SHRINK 352 -20.369324 -20.482370
< HI-REDUCTION 354 -20.404185 -20.482370
< HI-REDUCTION 356 -20.470304 -20.482370
< SHRINK 361 -20.388121 -20.483457
< LO-REDUCTION 363 -20.402156 -20.483457
< SHRINK 368 -20.395481 -20.483457
< LO-REDUCTION 370 -20.470521 -20.483457
< SHRINK 375 -20.482046 -20.483457
---
> SHRINK 160 -19.714203 -20.036526
> LO-REDUCTION 162 -19.900941 -20.036526
> SHRINK 167 -19.494052 -20.036526
> LO-REDUCTION 169 -19.557532 -20.036526
> LO-REDUCTION 171 -19.635954 -20.036526
> SHRINK 176 -19.571857 -20.036526
> HI-REDUCTION 178 -19.633935 -20.036526
> LO-REDUCTION 180 -19.773673 -20.036526
> SHRINK 185 -19.580741 -20.036526
> LO-REDUCTION 187 -19.713589 -20.036526
> SHRINK 192 -19.778851 -20.075344
> LO-REDUCTION 194 -19.920306 -20.075344
> SHRINK 199 -19.253544 -20.075344
> LO-REDUCTION 201 -19.563461 -20.075344
> LO-REDUCTION 203 -19.657461 -20.075344
> SHRINK 208 -19.386987 -20.075344
> LO-REDUCTION 210 -19.445799 -20.075344
> LO-REDUCTION 212 -19.595884 -20.075344
> SHRINK 217 -19.582926 -20.151824
> LO-REDUCTION 219 -19.753819 -20.151824
> LO-REDUCTION 221 -19.772159 -20.151824
> LO-REDUCTION 223 -19.782335 -20.151824
> SHRINK 228 -19.596088 -20.151824
> LO-REDUCTION 230 -19.681504 -20.151824
> SHRINK 235 -19.609725 -20.151824
> HI-REDUCTION 237 -19.615594 -20.151824
> HI-REDUCTION 239 -19.651915 -20.151824
> LO-REDUCTION 241 -19.694368 -20.151824
> LO-REDUCTION 243 -19.769449 -20.151824
> HI-REDUCTION 245 -19.782970 -20.151824
> SHRINK 250 -19.592628 -20.151824
> LO-REDUCTION 252 -19.877327 -20.151824
> HI-REDUCTION 254 -19.966120 -20.151824
> SHRINK 259 -19.757861 -20.151824
> LO-REDUCTION 261 -19.978390 -20.151824
> SHRINK 266 -19.866279 -20.151824
> HI-REDUCTION 268 -20.048979 -20.151824
> LO-REDUCTION 270 -20.073212 -20.164817
> HI-REDUCTION 272 -20.082314 -20.265947
> LO-REDUCTION 274 -20.151824 -20.265947
> SHRINK 279 -20.086588 -20.265947
> SHRINK 284 -20.054913 -20.265947
> REFLECTION 286 -20.079536 -20.312392
> LO-REDUCTION 288 -20.216102 -20.312392
> SHRINK 293 -20.153482 -20.312392
> SHRINK 298 -20.097052 -20.312392
> LO-REDUCTION 300 -20.118531 -20.312392
> LO-REDUCTION 302 -20.165018 -20.312392
> LO-REDUCTION 304 -20.176834 -20.312392
> SHRINK 309 -20.130573 -20.312392
> LO-REDUCTION 311 -20.175138 -20.312392
> HI-REDUCTION 313 -20.232404 -20.312392
> SHRINK 318 -20.158381 -20.340133
> LO-REDUCTION 320 -20.250809 -20.340133
> SHRINK 325 -20.236229 -20.340133
> LO-REDUCTION 327 -20.270202 -20.340133
> LO-REDUCTION 329 -20.313522 -20.340133
> SHRINK 334 -20.301190 -20.340133
> LO-REDUCTION 336 -20.320514 -20.340133
> SHRINK 341 -20.309539 -20.340133
> LO-REDUCTION 343 -20.328223 -20.340133
> SHRINK 348 -20.316445 -20.341834
> LO-REDUCTION 350 -20.337619 -20.341834
> HI-REDUCTION 352 -20.340133 -20.341834
> HI-REDUCTION 354 -20.341082 -20.341834
> SHRINK 359 -20.341834 -20.343672
> SHRINK 364 -20.341834 -20.343672
> SHRINK 369 -20.341834 -20.343672
216c207
< 377 function evaluations used
---
> 371 function evaluations used
243,244c234,235
< log.r 3.0 3.8 3.80 3.74
< log.sigma 0.0 -1.2 -1.66 -1.12
---
> log.r 3.0 3.8 3.79 3.74
> log.sigma 0.0 -1.2 -1.74 -1.12
248,249c239,240
< loglik -230.9 -139.5 -136.91 -143.82
< synth.loglik -12.3 17.5 17.87 20.48
---
> loglik -230.9 -139.5 -137.35 -143.33
> synth.loglik -12.3 17.5 16.47 20.34
Running 'rw2.R'
Comparing 'rw2.Rout' to 'rw2.Rout.save' ... OK
Running 'sir.R'
Comparing 'sir.Rout' to 'sir.Rout.save' ... OK
Running 'skeleton.R'
Comparing 'skeleton.Rout' to 'skeleton.Rout.save' ... OK
Running 'steps.R'
Comparing 'steps.Rout' to 'steps.Rout.save' ... OK
Running 'synlik.R'
Comparing 'synlik.Rout' to 'synlik.Rout.save' ... OK
Running 'verhulst.R'
Comparing 'verhulst.Rout' to 'verhulst.Rout.save' ... OK
** running tests for arch 'x86_64' OK
Running 'examples.R'
Running 'fhn.R'
Comparing 'fhn.Rout' to 'fhn.Rout.save' ...99,100c99,100
< V -1.3052992 1.273985078
< R -0.5591627 -0.006931772
---
> V -1.3052919 1.27398107
> R -0.5591608 -0.00692014
105,106c105,106
< V -1.4459110 1.19170996
< R -0.5707845 0.02731362
---
> V -1.4459045 1.19170161
> R -0.5707824 0.02732499
111,112c111,112
< V -1.4714085 1.32438380
< R -0.5861084 0.06163235
---
> V -1.4714039 1.32437192
> R -0.5861061 0.06164339
Running 'filtfail.R'
Comparing 'filtfail.Rout' to 'filtfail.Rout.save' ... OK
Running 'gillespie.R'
Comparing 'gillespie.Rout' to 'gillespie.Rout.save' ... OK
Running 'gompertz.R'
Comparing 'gompertz.Rout' to 'gompertz.Rout.save' ... OK
Running 'logistic.R'
Comparing 'logistic.Rout' to 'logistic.Rout.save' ... OK
Running 'ou2-bsmc.R'
Comparing 'ou2-bsmc.Rout' to 'ou2-bsmc.Rout.save' ...70c70
< [1] -4.705647
---
> [1] -30.90868
77c77
< [1] -4.250385
---
> [1] -30.27596
Running 'ou2-forecast.R'
Comparing 'ou2-forecast.Rout' to 'ou2-forecast.Rout.save' ... OK
Running 'ou2-icfit.R'
Comparing 'ou2-icfit.Rout' to 'ou2-icfit.Rout.save' ... OK
Running 'ou2-kalman.R'
Comparing 'ou2-kalman.Rout' to 'ou2-kalman.Rout.save' ... OK
Running 'ou2-mif.R'
Comparing 'ou2-mif.Rout' to 'ou2-mif.Rout.save' ... OK
Running 'ou2-nlf.R'
Comparing 'ou2-nlf.Rout' to 'ou2-nlf.Rout.save' ... OK
Running 'ou2-pmcmc.R'
Comparing 'ou2-pmcmc.Rout' to 'ou2-pmcmc.Rout.save' ... OK
Running 'ou2-probe.R'
Comparing 'ou2-probe.Rout' to 'ou2-probe.Rout.save' ...178c178
< [1] 1.221245e-15
---
> [1] 1.110223e-16
208c208
< [1] 91.60465
---
> [1] 93.95585
Running 'ou2-procmeas.R'
Comparing 'ou2-procmeas.Rout' to 'ou2-procmeas.Rout.save' ... OK
Running 'ou2-simulate.R'
Comparing 'ou2-simulate.Rout' to 'ou2-simulate.Rout.save' ... OK
Running 'ou2-trajmatch.R'
Comparing 'ou2-trajmatch.Rout' to 'ou2-trajmatch.Rout.save' ... OK
Running 'pfilter.R'
Comparing 'pfilter.Rout' to 'pfilter.Rout.save' ... OK
Running 'pomppomp.R'
Comparing 'pomppomp.Rout' to 'pomppomp.Rout.save' ... OK
Running 'ricker-probe.R'
Comparing 'ricker-probe.Rout' to 'ricker-probe.Rout.save' ...134c134
< 1.000000e+00 -3.470661e-18 -1.108330e-18
---
> 1.000000e+00 2.308125e-18 9.896164e-19
177c177
< 1.000000e+00 -3.470661e-18 -1.108330e-18 3.679493e+03 -1.275470e+03
---
> 1.000000e+00 2.308125e-18 9.896164e-19 3.679493e+03 -1.275470e+03
261c261
< 1.000000e+00 -3.470661e-18 -1.108330e-18
---
> 1.000000e+00 2.308125e-18 9.896164e-19
296c296
< 10.402 0.530 10.931
---
> 7.680 0.008 7.713
355c355
< 8.080 0.366 8.445
---
> 5.668 0.000 5.683
514c514
< [1] 30.22958
---
> [1] 29.82456
Running 'ricker-spect.R'
Comparing 'ricker-spect.Rout' to 'ricker-spect.Rout.save' ... OK
Running 'ricker.R'
Comparing 'ricker.Rout' to 'ricker.Rout.save' ...94,95c94,95
< HI-REDUCTION 32 -18.135507 -19.025697
< HI-REDUCTION 34 -18.406162 -19.025697
---
> HI-REDUCTION 32 -18.135507 -19.025728
> HI-REDUCTION 34 -18.406162 -19.025728
98c98
< HI-REDUCTION 40 -19.025697 -19.711127
---
> HI-REDUCTION 40 -19.025728 -19.711127
104c104
< LO-REDUCTION 58 -19.213270 -19.858319
---
> LO-REDUCTION 58 -19.213348 -19.858319
132c132
< LO-REDUCTION 144 -19.541821 -20.036526
---
> LO-REDUCTION 144 -19.541768 -20.036526
137,213c137,204
< HI-REDUCTION 157 -19.857050 -20.036526
< SHRINK 162 -19.619339 -20.036526
< LO-REDUCTION 164 -19.714203 -20.036526
< LO-REDUCTION 166 -19.899421 -20.036526
< SHRINK 171 -19.494052 -20.036526
< LO-REDUCTION 173 -19.656942 -20.039593
< LO-REDUCTION 175 -19.793718 -20.039593
< REFLECTION 177 -19.803811 -20.057243
< HI-REDUCTION 179 -19.811405 -20.057243
< SHRINK 184 -19.651680 -20.057243
< LO-REDUCTION 186 -19.705462 -20.057243
< LO-REDUCTION 188 -19.743525 -20.057243
< SHRINK 193 -19.557487 -20.057243
< LO-REDUCTION 195 -19.597290 -20.057243
< LO-REDUCTION 197 -19.783177 -20.057243
< LO-REDUCTION 199 -19.862439 -20.057243
< LO-REDUCTION 201 -19.880573 -20.057243
< SHRINK 206 -19.634931 -20.057243
< LO-REDUCTION 208 -19.689080 -20.057243
< LO-REDUCTION 210 -19.794176 -20.057243
< HI-REDUCTION 212 -19.885099 -20.057243
< LO-REDUCTION 214 -19.899959 -20.057243
< SHRINK 219 -19.593439 -20.057243
< LO-REDUCTION 221 -19.594954 -20.057243
< LO-REDUCTION 223 -19.961413 -20.057243
< SHRINK 228 -19.818816 -20.057243
< HI-REDUCTION 230 -19.877892 -20.057243
< SHRINK 235 -19.797069 -20.057243
< LO-REDUCTION 237 -19.841876 -20.115805
< LO-REDUCTION 239 -19.892766 -20.115805
< SHRINK 244 -19.887635 -20.115805
< HI-REDUCTION 246 -19.934675 -20.237392
< SHRINK 251 -20.008890 -20.237392
< REFLECTION 253 -20.036489 -20.259433
< HI-REDUCTION 255 -20.087695 -20.259433
< LO-REDUCTION 257 -20.207204 -20.259433
< SHRINK 262 -19.984461 -20.259433
< SHRINK 267 -19.984799 -20.259433
< SHRINK 272 -19.845300 -20.259433
< LO-REDUCTION 274 -19.889364 -20.259433
< LO-REDUCTION 276 -19.999564 -20.259433
< HI-REDUCTION 278 -20.006411 -20.259433
< LO-REDUCTION 280 -20.138017 -20.259433
< HI-REDUCTION 282 -20.141223 -20.259433
< HI-REDUCTION 284 -20.146834 -20.259433
< SHRINK 289 -19.906087 -20.259433
< LO-REDUCTION 291 -20.123761 -20.268866
< LO-REDUCTION 293 -20.151617 -20.268866
< LO-REDUCTION 295 -20.192722 -20.268866
< SHRINK 300 -20.129055 -20.268866
< HI-REDUCTION 302 -20.148408 -20.268866
< LO-REDUCTION 304 -20.153190 -20.268866
< REFLECTION 306 -20.229173 -20.340255
< HI-REDUCTION 308 -20.236442 -20.340255
< HI-REDUCTION 310 -20.253248 -20.340255
< HI-REDUCTION 312 -20.268866 -20.378898
< REFLECTION 314 -20.272843 -20.386470
< HI-REDUCTION 316 -20.309205 -20.386470
< SHRINK 321 -20.245172 -20.398172
< LO-REDUCTION 323 -20.302912 -20.398172
< LO-REDUCTION 325 -20.382344 -20.439412
< HI-REDUCTION 327 -20.386470 -20.439412
< LO-REDUCTION 329 -20.398172 -20.439412
< HI-REDUCTION 331 -20.403031 -20.439412
< SHRINK 336 -20.410905 -20.457839
< REFLECTION 338 -20.439412 -20.477653
< LO-REDUCTION 340 -20.455109 -20.477653
< SHRINK 345 -20.345472 -20.477653
< LO-REDUCTION 347 -20.389889 -20.482046
< SHRINK 352 -20.369324 -20.482370
< HI-REDUCTION 354 -20.404185 -20.482370
< HI-REDUCTION 356 -20.470304 -20.482370
< SHRINK 361 -20.388121 -20.483457
< LO-REDUCTION 363 -20.402156 -20.483457
< SHRINK 368 -20.395481 -20.483457
< LO-REDUCTION 370 -20.470521 -20.483457
< SHRINK 375 -20.482046 -20.483457
---
> SHRINK 160 -19.714203 -20.036526
> LO-REDUCTION 162 -19.900941 -20.036526
> SHRINK 167 -19.494052 -20.036526
> LO-REDUCTION 169 -19.557532 -20.036526
> LO-REDUCTION 171 -19.635954 -20.036526
> SHRINK 176 -19.571857 -20.036526
> HI-REDUCTION 178 -19.633935 -20.036526
> LO-REDUCTION 180 -19.773673 -20.036526
> SHRINK 185 -19.580741 -20.036526
> LO-REDUCTION 187 -19.713589 -20.036526
> SHRINK 192 -19.778851 -20.075344
> LO-REDUCTION 194 -19.920306 -20.075344
> SHRINK 199 -19.253544 -20.075344
> LO-REDUCTION 201 -19.563461 -20.075344
> LO-REDUCTION 203 -19.657461 -20.075344
> SHRINK 208 -19.386987 -20.075344
> LO-REDUCTION 210 -19.445799 -20.075344
> LO-REDUCTION 212 -19.595884 -20.075344
> SHRINK 217 -19.582926 -20.151824
> LO-REDUCTION 219 -19.753819 -20.151824
> LO-REDUCTION 221 -19.772159 -20.151824
> LO-REDUCTION 223 -19.782335 -20.151824
> SHRINK 228 -19.596088 -20.151824
> LO-REDUCTION 230 -19.681504 -20.151824
> SHRINK 235 -19.609725 -20.151824
> HI-REDUCTION 237 -19.615594 -20.151824
> HI-REDUCTION 239 -19.651915 -20.151824
> LO-REDUCTION 241 -19.694368 -20.151824
> LO-REDUCTION 243 -19.769449 -20.151824
> HI-REDUCTION 245 -19.782970 -20.151824
> SHRINK 250 -19.592628 -20.151824
> LO-REDUCTION 252 -19.877327 -20.151824
> HI-REDUCTION 254 -19.966120 -20.151824
> SHRINK 259 -19.757861 -20.151824
> LO-REDUCTION 261 -19.978390 -20.151824
> SHRINK 266 -19.866279 -20.151824
> HI-REDUCTION 268 -20.048979 -20.151824
> LO-REDUCTION 270 -20.073212 -20.164817
> HI-REDUCTION 272 -20.082314 -20.265947
> LO-REDUCTION 274 -20.151824 -20.265947
> SHRINK 279 -20.086588 -20.265947
> SHRINK 284 -20.054913 -20.265947
> REFLECTION 286 -20.079536 -20.312392
> LO-REDUCTION 288 -20.216102 -20.312392
> SHRINK 293 -20.153482 -20.312392
> SHRINK 298 -20.097052 -20.312392
> LO-REDUCTION 300 -20.118531 -20.312392
> LO-REDUCTION 302 -20.165018 -20.312392
> LO-REDUCTION 304 -20.176834 -20.312392
> SHRINK 309 -20.130573 -20.312392
> LO-REDUCTION 311 -20.175138 -20.312392
> HI-REDUCTION 313 -20.232404 -20.312392
> SHRINK 318 -20.158381 -20.340133
> LO-REDUCTION 320 -20.250809 -20.340133
> SHRINK 325 -20.236229 -20.340133
> LO-REDUCTION 327 -20.270202 -20.340133
> LO-REDUCTION 329 -20.313522 -20.340133
> SHRINK 334 -20.301190 -20.340133
> LO-REDUCTION 336 -20.320514 -20.340133
> SHRINK 341 -20.309539 -20.340133
> LO-REDUCTION 343 -20.328223 -20.340133
> SHRINK 348 -20.316445 -20.341834
> LO-REDUCTION 350 -20.337619 -20.341834
> HI-REDUCTION 352 -20.340133 -20.341834
> HI-REDUCTION 354 -20.341082 -20.341834
> SHRINK 359 -20.341834 -20.343672
> SHRINK 364 -20.341834 -20.343672
> SHRINK 369 -20.341834 -20.343672
216c207
< 377 function evaluations used
---
> 371 function evaluations used
243,244c234,235
< log.r 3.0 3.8 3.80 3.74
< log.sigma 0.0 -1.2 -1.66 -1.12
---
> log.r 3.0 3.8 3.79 3.74
> log.sigma 0.0 -1.2 -1.74 -1.12
248,249c239,240
< loglik -230.9 -139.5 -136.91 -143.82
< synth.loglik -12.3 17.5 17.87 20.48
---
> loglik -230.9 -139.5 -137.35 -143.33
> synth.loglik -12.3 17.5 16.47 20.34
Running 'rw2.R'
Comparing 'rw2.Rout' to 'rw2.Rout.save' ... OK
Running 'sir.R'
Comparing 'sir.Rout' to 'sir.Rout.save' ... OK
Running 'skeleton.R'
Comparing 'skeleton.Rout' to 'skeleton.Rout.save' ... OK
Running 'steps.R'
Comparing 'steps.Rout' to 'steps.Rout.save' ... OK
Running 'synlik.R'
Comparing 'synlik.Rout' to 'synlik.Rout.save' ... OK
Running 'verhulst.R'
Comparing 'verhulst.Rout' to 'verhulst.Rout.save' ... OK
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes in 'inst/doc' ... OK
- checking running R code from vignettes ... OK
- checking re-building of vignette PDFs ... OK
- checking PDF version of manual ... OK
- elapsed time (check, wall clock): 12:19