[Pomp-commits] r1199 - pkg/pomp/tests
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Thu Jun 11 13:56:11 CEST 2015
Author: kingaa
Date: 2015-06-11 13:56:11 +0200 (Thu, 11 Jun 2015)
New Revision: 1199
Modified:
pkg/pomp/tests/bbs-trajmatch.Rout.save
pkg/pomp/tests/bbs.Rout.save
pkg/pomp/tests/blowflies.Rout.save
pkg/pomp/tests/dacca.Rout.save
pkg/pomp/tests/dimchecks.Rout.save
pkg/pomp/tests/fhn.Rout.save
pkg/pomp/tests/filtfail.Rout.save
pkg/pomp/tests/getting_started.Rout.save
pkg/pomp/tests/gillespie.Rout.save
pkg/pomp/tests/gompertz.Rout.save
pkg/pomp/tests/logistic.Rout.save
pkg/pomp/tests/ou2-abc.Rout.save
pkg/pomp/tests/ou2-bsmc.Rout.save
pkg/pomp/tests/ou2-bsmc2.Rout.save
pkg/pomp/tests/ou2-forecast.Rout.save
pkg/pomp/tests/ou2-kalman.Rout.save
pkg/pomp/tests/ou2-mif-fp.Rout.save
pkg/pomp/tests/ou2-mif.Rout.save
pkg/pomp/tests/ou2-mif2.Rout.save
pkg/pomp/tests/ou2-nlf.Rout.save
pkg/pomp/tests/ou2-pmcmc.Rout.save
pkg/pomp/tests/ou2-probe.Rout.save
pkg/pomp/tests/ou2-procmeas.Rout.save
pkg/pomp/tests/ou2-simulate.Rout.save
pkg/pomp/tests/ou2-spect.Rout.save
pkg/pomp/tests/ou2-trajmatch.Rout.save
pkg/pomp/tests/partrans.Rout.save
pkg/pomp/tests/pfilter.Rout.save
pkg/pomp/tests/pomppomp.Rout.save
pkg/pomp/tests/prior.Rout.save
pkg/pomp/tests/ricker-bsmc.Rout.save
pkg/pomp/tests/ricker-probe.Rout.save
pkg/pomp/tests/ricker-spect.Rout.save
pkg/pomp/tests/ricker.Rout.save
pkg/pomp/tests/rw2.Rout.save
pkg/pomp/tests/sir.Rout.save
pkg/pomp/tests/skeleton.Rout.save
pkg/pomp/tests/steps.Rout.save
pkg/pomp/tests/synlik.Rout.save
Log:
- update tests
Modified: pkg/pomp/tests/bbs-trajmatch.Rout.save
===================================================================
--- pkg/pomp/tests/bbs-trajmatch.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/bbs-trajmatch.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -18,7 +18,7 @@
> library(pomp)
>
> pompExample(bbs)
-In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'comp.names','ic.names','nbasis','degree','period','logvar','logitvar'
+In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'nbasis','degree','period','logvar','logitvar'
newly created object(s):
bbs
>
@@ -81,4 +81,4 @@
>
> proc.time()
user system elapsed
- 2.216 0.056 2.277
+ 2.116 0.064 2.181
Modified: pkg/pomp/tests/bbs.Rout.save
===================================================================
--- pkg/pomp/tests/bbs.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/bbs.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -18,7 +18,7 @@
> library(pomp)
>
> pompExample(bbs)
-In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'comp.names','ic.names','nbasis','degree','period','logvar','logitvar'
+In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'nbasis','degree','period','logvar','logitvar'
newly created object(s):
bbs
>
@@ -72,4 +72,4 @@
>
> proc.time()
user system elapsed
- 5.836 0.080 5.930
+ 5.636 0.048 5.699
Modified: pkg/pomp/tests/blowflies.Rout.save
===================================================================
--- pkg/pomp/tests/blowflies.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/blowflies.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -72,4 +72,4 @@
>
> proc.time()
user system elapsed
- 1.144 0.048 1.193
+ 1.188 0.052 1.243
Modified: pkg/pomp/tests/dacca.Rout.save
===================================================================
--- pkg/pomp/tests/dacca.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/dacca.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -106,4 +106,4 @@
>
> proc.time()
user system elapsed
- 10.344 0.068 10.445
+ 10.464 0.044 10.537
Modified: pkg/pomp/tests/dimchecks.Rout.save
===================================================================
--- pkg/pomp/tests/dimchecks.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/dimchecks.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -177,4 +177,4 @@
>
> proc.time()
user system elapsed
- 0.472 0.052 0.524
+ 0.484 0.052 0.530
Modified: pkg/pomp/tests/fhn.Rout.save
===================================================================
--- pkg/pomp/tests/fhn.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/fhn.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -91,4 +91,4 @@
>
> proc.time()
user system elapsed
- 0.932 0.040 1.151
+ 0.944 0.040 1.101
Modified: pkg/pomp/tests/filtfail.Rout.save
===================================================================
--- pkg/pomp/tests/filtfail.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/filtfail.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -114,4 +114,4 @@
>
> proc.time()
user system elapsed
- 0.484 0.052 0.532
+ 0.488 0.048 0.532
Modified: pkg/pomp/tests/getting_started.Rout.save
===================================================================
--- pkg/pomp/tests/getting_started.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/getting_started.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -188,4 +188,4 @@
>
> proc.time()
user system elapsed
- 77.372 0.508 80.185
+ 75.636 0.428 77.786
Modified: pkg/pomp/tests/gillespie.Rout.save
===================================================================
--- pkg/pomp/tests/gillespie.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/gillespie.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -130,4 +130,4 @@
>
> proc.time()
user system elapsed
- 2.396 0.040 2.574
+ 2.392 0.036 2.456
Modified: pkg/pomp/tests/gompertz.Rout.save
===================================================================
--- pkg/pomp/tests/gompertz.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/gompertz.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -134,4 +134,4 @@
>
> proc.time()
user system elapsed
- 1.400 0.072 1.479
+ 1.360 0.040 1.402
Modified: pkg/pomp/tests/logistic.Rout.save
===================================================================
--- pkg/pomp/tests/logistic.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/logistic.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -122,4 +122,4 @@
>
> proc.time()
user system elapsed
- 0.776 0.028 0.933
+ 0.784 0.052 0.934
Modified: pkg/pomp/tests/ou2-abc.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-abc.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-abc.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -137,4 +137,4 @@
>
> proc.time()
user system elapsed
- 8.716 0.064 9.016
+ 9.084 0.060 9.367
Modified: pkg/pomp/tests/ou2-bsmc.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-bsmc.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-bsmc.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -57,7 +57,7 @@
> post <- smc$post
>
> print(etime <- toc-tic)
-Time difference of 2.093374 secs
+Time difference of 2.067623 secs
>
> print(
+ cbind(
@@ -99,4 +99,4 @@
>
> proc.time()
user system elapsed
- 3.604 0.044 3.657
+ 3.540 0.048 3.595
Modified: pkg/pomp/tests/ou2-bsmc2.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-bsmc2.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-bsmc2.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -54,7 +54,7 @@
> post <- smc$post
>
> print(etime <- toc-tic)
-Time difference of 1.774082 secs
+Time difference of 0.8759451 secs
>
> print(
+ cbind(
@@ -96,4 +96,4 @@
>
> proc.time()
user system elapsed
- 3.196 0.060 3.260
+ 1.836 0.056 1.891
Modified: pkg/pomp/tests/ou2-forecast.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-forecast.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-forecast.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -59,4 +59,4 @@
>
> proc.time()
user system elapsed
- 1.312 0.040 1.461
+ 1.084 0.048 1.232
Modified: pkg/pomp/tests/ou2-kalman.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-kalman.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-kalman.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -162,7 +162,7 @@
117 function evaluations used
> toc <- Sys.time()
> print(toc-tic)
-Time difference of 2.517805 secs
+Time difference of 2.738458 secs
> tic <- Sys.time()
> print(loglik.mle <- -kalm.fit1$value,digits=4)
[1] -477.2
@@ -186,4 +186,4 @@
>
> proc.time()
user system elapsed
- 3.032 0.044 3.077
+ 3.264 0.036 3.305
Modified: pkg/pomp/tests/ou2-mif-fp.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-mif-fp.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-mif-fp.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -72,4 +72,4 @@
>
> proc.time()
user system elapsed
- 18.301 0.056 18.632
+ 14.864 0.052 15.083
Modified: pkg/pomp/tests/ou2-mif.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-mif.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-mif.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -277,4 +277,4 @@
>
> proc.time()
user system elapsed
- 10.936 0.040 11.153
+ 8.732 0.036 8.913
Modified: pkg/pomp/tests/ou2-mif2.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-mif2.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-mif2.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -199,4 +199,4 @@
>
> proc.time()
user system elapsed
- 65.800 0.072 66.297
+ 53.427 0.048 53.843
Modified: pkg/pomp/tests/ou2-nlf.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-nlf.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-nlf.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -83,4 +83,4 @@
>
> proc.time()
user system elapsed
- 3.900 0.048 3.997
+ 4.180 0.048 4.261
Modified: pkg/pomp/tests/ou2-pmcmc.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-pmcmc.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-pmcmc.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -138,4 +138,4 @@
>
> proc.time()
user system elapsed
- 23.765 0.076 24.071
+ 21.905 0.076 22.217
Modified: pkg/pomp/tests/ou2-probe.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-probe.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-probe.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -341,4 +341,4 @@
>
> proc.time()
user system elapsed
- 7.112 0.064 7.359
+ 7.128 0.048 7.324
Modified: pkg/pomp/tests/ou2-procmeas.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-procmeas.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-procmeas.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -52,4 +52,4 @@
>
> proc.time()
user system elapsed
- 0.476 0.052 0.525
+ 0.492 0.032 0.520
Modified: pkg/pomp/tests/ou2-simulate.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-simulate.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-simulate.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -33,7 +33,7 @@
> ou2.sim <- simulate(ou2,params=p,nsim=100,seed=32043858)
> toc <- Sys.time()
> print(toc-tic)
-Time difference of 0.004858494 secs
+Time difference of 0.00493741 secs
>
> coef(ou2,c('x1.0','x2.0')) <- c(-50,50)
>
@@ -44,4 +44,4 @@
>
> proc.time()
user system elapsed
- 0.488 0.040 0.527
+ 0.492 0.040 0.528
Modified: pkg/pomp/tests/ou2-spect.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-spect.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-spect.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -36,4 +36,4 @@
>
> proc.time()
user system elapsed
- 18.209 0.032 18.302
+ 16.957 0.040 17.048
Modified: pkg/pomp/tests/ou2-trajmatch.Rout.save
===================================================================
--- pkg/pomp/tests/ou2-trajmatch.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ou2-trajmatch.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -173,4 +173,4 @@
>
> proc.time()
user system elapsed
- 1.400 0.032 1.434
+ 1.332 0.060 1.393
Modified: pkg/pomp/tests/partrans.Rout.save
===================================================================
--- pkg/pomp/tests/partrans.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/partrans.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -67,4 +67,4 @@
>
> proc.time()
user system elapsed
- 0.444 0.076 0.521
+ 0.488 0.040 0.527
Modified: pkg/pomp/tests/pfilter.Rout.save
===================================================================
--- pkg/pomp/tests/pfilter.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/pfilter.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -43,15 +43,15 @@
-479.61 0.46
>
> pompExample(euler.sir)
-In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'comp.names','ic.names','nbasis','degree','period'
+In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'nbasis','degree','period'
newly created object(s):
euler.sir
> pf <- pfilter(euler.sir,Np=100,seed=394343L)
> print(coef(pf))
gamma mu iota beta1 beta2 beta3 beta.sd pop
2.60e+01 2.00e-02 1.00e-02 4.00e+02 4.80e+02 3.20e+02 1.00e-03 2.10e+06
- rho overdisp S.0 I.0 R.0
-6.00e-01 1.00e+00 6.50e-02 1.00e-03 9.35e-01
+ rho S.0 I.0 R.0
+6.00e-01 6.50e-02 1.00e-03 9.35e-01
> print(pf$loglik,digits=4)
[1] -947.4
>
@@ -62,8 +62,8 @@
> print(coef(pf))
gamma mu iota beta1 beta2 beta3 beta.sd pop
2.60e+01 2.00e-02 1.00e+00 4.00e+02 4.80e+02 3.20e+02 1.00e-03 2.10e+06
- rho overdisp S.0 I.0 R.0
-6.00e-01 1.00e+00 6.50e-02 1.00e-03 9.35e-01
+ rho S.0 I.0 R.0
+6.00e-01 6.50e-02 1.00e-03 9.35e-01
> print(logLik(pf),digits=4)
[1] -945.4
> plot(cond.loglik~time,data=as(pf,"data.frame"),type='l')
@@ -76,4 +76,4 @@
>
> proc.time()
user system elapsed
- 8.224 0.052 8.455
+ 6.308 0.040 6.488
Modified: pkg/pomp/tests/pomppomp.Rout.save
===================================================================
--- pkg/pomp/tests/pomppomp.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/pomppomp.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -53,4 +53,4 @@
>
> proc.time()
user system elapsed
- 0.500 0.032 0.562
+ 0.440 0.076 0.538
Modified: pkg/pomp/tests/prior.Rout.save
===================================================================
--- pkg/pomp/tests/prior.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/prior.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -71,4 +71,4 @@
>
> proc.time()
user system elapsed
- 0.604 0.040 0.643
+ 0.624 0.028 0.648
Modified: pkg/pomp/tests/ricker-bsmc.Rout.save
===================================================================
--- pkg/pomp/tests/ricker-bsmc.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ricker-bsmc.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -52,4 +52,4 @@
>
> proc.time()
user system elapsed
- 2.148 0.084 2.405
+ 2.180 0.056 2.372
Modified: pkg/pomp/tests/ricker-probe.Rout.save
===================================================================
--- pkg/pomp/tests/ricker-probe.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ricker-probe.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -295,4 +295,4 @@
>
> proc.time()
user system elapsed
- 11.348 0.060 11.606
+ 11.428 0.064 11.684
Modified: pkg/pomp/tests/ricker-spect.Rout.save
===================================================================
--- pkg/pomp/tests/ricker-spect.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ricker-spect.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -68,4 +68,4 @@
>
> proc.time()
user system elapsed
- 1.920 0.032 2.118
+ 1.920 0.056 2.121
Modified: pkg/pomp/tests/ricker.Rout.save
===================================================================
--- pkg/pomp/tests/ricker.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/ricker.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -81,4 +81,4 @@
>
> proc.time()
user system elapsed
- 0.572 0.060 0.734
+ 0.592 0.040 0.747
Modified: pkg/pomp/tests/rw2.Rout.save
===================================================================
--- pkg/pomp/tests/rw2.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/rw2.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -163,7 +163,7 @@
}
y
}
-<environment: 0x2feca80>
+<environment: 0x355c888>
measurement model density, dmeasure =
function (y, x, t, params, log, covars, ...)
{
@@ -176,7 +176,7 @@
f
else exp(f)
}
-<environment: 0x2feca80>
+<environment: 0x355c888>
prior simulator, rprior =
function not specified
prior density, dprior =
@@ -340,4 +340,4 @@
>
> proc.time()
user system elapsed
- 0.844 0.028 0.869
+ 0.848 0.028 0.875
Modified: pkg/pomp/tests/sir.Rout.save
===================================================================
--- pkg/pomp/tests/sir.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/sir.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -190,7 +190,7 @@
method = 0L, zeronames = zeronames, tcovar = tcovar,
covar = covar, args = pairlist(...), gnsi = .getnativesymbolinfo)
}
-<environment: 0x3dd6360>
+<environment: 0x2790e18>
process model density, dprocess =
function (x, times, params, ..., tcovar, covar, log = FALSE,
.getnativesymbolinfo = TRUE)
@@ -199,7 +199,7 @@
params = params, tcovar = tcovar, covar = covar, log = log,
args = pairlist(...), gnsi = .getnativesymbolinfo)
}
-<environment: 0x3e1ce38>
+<environment: 0x27bf198>
measurement model simulator, rmeasure =
function (x, t, params, covars, ...)
{
@@ -272,7 +272,7 @@
> x <- simulate(po,nsim=3)
> toc <- Sys.time()
> print(toc-tic)
-Time difference of 0.75108 secs
+Time difference of 0.7570972 secs
>
> pdf(file='sir.pdf')
>
@@ -289,7 +289,7 @@
> X3 <- trajectory(po,times=t3,hmax=1/52)
> toc <- Sys.time()
> print(toc-tic)
-Time difference of 0.4465754 secs
+Time difference of 0.4441555 secs
> plot(t3,X3['I',1,],type='l')
>
> f1 <- dprocess(
@@ -333,7 +333,7 @@
>
> ## now repeat using the compiled native codes built into the package
> pompExample(euler.sir)
-In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'comp.names','ic.names','nbasis','degree','period'
+In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'nbasis','degree','period'
newly created object(s):
euler.sir
> po <- euler.sir
@@ -344,7 +344,7 @@
> x <- simulate(po,nsim=100)
> toc <- Sys.time()
> print(toc-tic)
-Time difference of 2.476219 secs
+Time difference of 2.466657 secs
> plot(x[[1]],variables=c("S","I","R","cases","W"))
>
> t3 <- seq(0,20,by=1/52)
@@ -352,7 +352,7 @@
> X4 <- trajectory(po,times=t3,hmax=1/52)
> toc <- Sys.time()
> print(toc-tic)
-Time difference of 0.01562929 secs
+Time difference of 0.01557875 secs
> plot(t3,X4['I',1,],type='l')
>
> g2 <- dmeasure(
@@ -406,7 +406,7 @@
> ## test of vectorfield integrator
>
> pompExample(euler.sir)
-In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'comp.names','ic.names','nbasis','degree','period'
+In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'nbasis','degree','period'
newly created object(s):
euler.sir
>
@@ -450,4 +450,4 @@
>
> proc.time()
user system elapsed
- 4.596 0.056 4.826
+ 4.620 0.016 4.788
Modified: pkg/pomp/tests/skeleton.Rout.save
===================================================================
--- pkg/pomp/tests/skeleton.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/skeleton.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -41,7 +41,7 @@
> ## non-autonomous case
>
> pompExample(euler.sir)
-In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'comp.names','ic.names','nbasis','degree','period'
+In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'nbasis','degree','period'
newly created object(s):
euler.sir
> euler.sir <- simulate(euler.sir,seed=266045243L)
@@ -93,4 +93,4 @@
>
> proc.time()
user system elapsed
- 0.644 0.068 0.813
+ 0.660 0.044 0.812
Modified: pkg/pomp/tests/steps.Rout.save
===================================================================
--- pkg/pomp/tests/steps.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/steps.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -29,7 +29,7 @@
> stopifnot(identical(x,y))
>
> pompExample(euler.sir)
-In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'comp.names','ic.names','nbasis','degree','period'
+In 'pomp': the following unrecognized argument(s) will be stored for use by user-defined functions: 'nbasis','degree','period'
newly created object(s):
euler.sir
> tm <- sort(runif(n=100,max=1))
@@ -58,4 +58,4 @@
>
> proc.time()
user system elapsed
- 0.476 0.052 0.526
+ 0.492 0.052 0.541
Modified: pkg/pomp/tests/synlik.Rout.save
===================================================================
--- pkg/pomp/tests/synlik.Rout.save 2015-06-11 11:55:58 UTC (rev 1198)
+++ pkg/pomp/tests/synlik.Rout.save 2015-06-11 11:56:11 UTC (rev 1199)
@@ -114,4 +114,4 @@
>
> proc.time()
user system elapsed
- 5.572 0.044 5.667
+ 3.712 0.052 3.851
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