[Pomp-commits] r311 - in pkg: . pomp
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Mon Aug 30 18:21:37 CEST 2010
Author: kingaa
Date: 2010-08-30 18:21:37 +0200 (Mon, 30 Aug 2010)
New Revision: 311
Added:
pkg/DESCRIPTION
pkg/NAMESPACE
pkg/R/
pkg/data/
pkg/inst/
pkg/man/
pkg/src/
pkg/tests/
Removed:
pkg/pomp/DESCRIPTION
pkg/pomp/NAMESPACE
pkg/pomp/R/
pkg/pomp/data/
pkg/pomp/inst/
pkg/pomp/man/
pkg/pomp/src/
pkg/pomp/tests/
Log:
- put everything in pkg/pomp back into pkg
Copied: pkg/DESCRIPTION (from rev 310, pkg/pomp/DESCRIPTION)
===================================================================
--- pkg/DESCRIPTION (rev 0)
+++ pkg/DESCRIPTION 2010-08-30 16:21:37 UTC (rev 311)
@@ -0,0 +1,24 @@
+Package: pomp
+Type: Package
+Title: Statistical inference for partially observed Markov processes
+Version: 0.32-5
+Date: 2010-08-30
+Author: Aaron A. King, Edward L. Ionides, Carles Breto, Steve Ellner, Bruce Kendall, Helen Wearing,
+ Matthew J. Ferrari, Michael Lavine, Daniel C. Reuman
+Maintainer: Aaron A. King <kingaa at umich.edu>
+URL: http://pomp.r-forge.r-project.org
+Description: Inference methods for partially-observed Markov processes
+Depends: R(>= 2.9.1), stats, methods, graphics
+Imports: mvtnorm, subplex, deSolve
+License: GPL(>= 2)
+LazyLoad: true
+LazyData: false
+Collate: eulermultinom.R euler.R plugins.R slice.R sobol.R bsplines.R
+ pomp-fun.R pomp.R pomp-methods.R rmeasure-pomp.R rprocess-pomp.R
+ dmeasure-pomp.R dprocess-pomp.R simulate-pomp.R skeleton-pomp.R
+ trajectory-pomp.R plot-pomp.R init.state-pomp.R
+ pfilter.R traj-match.R bsmc.R
+ mif-class.R particles-mif.R pfilter-mif.R mif.R mif-methods.R compare.mif.R
+ pmcmc.R pmcmc-methods.R compare.pmcmc.R
+ nlf-funcs.R nlf-guts.R nlf-lql.R nlf-objfun.R nlf.R
+ probe.R probe-match.R basic-probes.R spect.R spect-match.R
Copied: pkg/NAMESPACE (from rev 310, pkg/pomp/NAMESPACE)
===================================================================
--- pkg/NAMESPACE (rev 0)
+++ pkg/NAMESPACE 2010-08-30 16:21:37 UTC (rev 311)
@@ -0,0 +1,70 @@
+useDynLib(
+ pomp,
+ bspline_basis,
+ periodic_bspline_basis,
+ bspline_basis_function,
+ systematic_resampling,
+ euler_model_simulator,
+ euler_model_density,
+ SSA_simulator,
+ R_Euler_Multinom,
+ D_Euler_Multinom,
+ do_rprocess,
+ do_dprocess,
+ do_rmeasure,
+ do_dmeasure,
+ do_skeleton,
+ do_init_state
+ )
+
+importFrom(graphics,plot)
+importFrom(stats,simulate,time,coef,logLik,window)
+importFrom(mvtnorm,dmvnorm,rmvnorm)
+importFrom(deSolve,lsoda)
+importFrom(subplex,subplex)
+
+exportClasses('pomp','mif','pmcmc','probed.pomp','probe.matched.pomp','spect.pomp','spect.matched.pomp')
+
+exportMethods(
+ 'plot','show','print','coerce',
+ 'dprocess','rprocess','rmeasure','dmeasure','init.state','skeleton',
+ 'data.array','summary','coef','logLik','time','time<-','timezero','timezero<-','window',
+ 'simulate','pfilter',
+ 'particles','mif','continue','coef<-','states','trajectory',
+ 'pred.mean','pred.var','filter.mean','conv.rec',
+ 'bsmc',
+ 'pmcmc','dprior',
+ 'spect','probe'
+ )
+
+export(
+ pomp,
+ reulermultinom,
+ deulermultinom,
+ euler.simulate,
+ onestep.simulate,
+ onestep.density,
+ euler.sim,
+ discrete.time.sim,
+ onestep.sim,
+ onestep.dens,
+ gillespie.sim,
+ sobol,
+ slice.design,
+ profile.design,
+ bspline.basis,
+ periodic.bspline.basis,
+ compare.mif,
+ nlf,
+ traj.match,
+ probe.mean,
+ probe.var,
+ probe.sd,
+ probe.period,
+ probe.quantile,
+ probe.acf,
+ probe.cov,
+ probe.cor,
+ probe.match,
+ spect.match
+ )
Deleted: pkg/pomp/DESCRIPTION
===================================================================
--- pkg/pomp/DESCRIPTION 2010-08-30 16:17:49 UTC (rev 310)
+++ pkg/pomp/DESCRIPTION 2010-08-30 16:21:37 UTC (rev 311)
@@ -1,24 +0,0 @@
-Package: pomp
-Type: Package
-Title: Statistical inference for partially observed Markov processes
-Version: 0.32-5
-Date: 2010-08-30
-Author: Aaron A. King, Edward L. Ionides, Carles Breto, Steve Ellner, Bruce Kendall, Helen Wearing,
- Matthew J. Ferrari, Michael Lavine, Daniel C. Reuman
-Maintainer: Aaron A. King <kingaa at umich.edu>
-URL: http://pomp.r-forge.r-project.org
-Description: Inference methods for partially-observed Markov processes
-Depends: R(>= 2.9.1), stats, methods, graphics
-Imports: mvtnorm, subplex, deSolve
-License: GPL(>= 2)
-LazyLoad: true
-LazyData: false
-Collate: eulermultinom.R euler.R plugins.R slice.R sobol.R bsplines.R
- pomp-fun.R pomp.R pomp-methods.R rmeasure-pomp.R rprocess-pomp.R
- dmeasure-pomp.R dprocess-pomp.R simulate-pomp.R skeleton-pomp.R
- trajectory-pomp.R plot-pomp.R init.state-pomp.R
- pfilter.R traj-match.R bsmc.R
- mif-class.R particles-mif.R pfilter-mif.R mif.R mif-methods.R compare.mif.R
- pmcmc.R pmcmc-methods.R compare.pmcmc.R
- nlf-funcs.R nlf-guts.R nlf-lql.R nlf-objfun.R nlf.R
- probe.R probe-match.R basic-probes.R spect.R spect-match.R
Deleted: pkg/pomp/NAMESPACE
===================================================================
--- pkg/pomp/NAMESPACE 2010-08-30 16:17:49 UTC (rev 310)
+++ pkg/pomp/NAMESPACE 2010-08-30 16:21:37 UTC (rev 311)
@@ -1,70 +0,0 @@
-useDynLib(
- pomp,
- bspline_basis,
- periodic_bspline_basis,
- bspline_basis_function,
- systematic_resampling,
- euler_model_simulator,
- euler_model_density,
- SSA_simulator,
- R_Euler_Multinom,
- D_Euler_Multinom,
- do_rprocess,
- do_dprocess,
- do_rmeasure,
- do_dmeasure,
- do_skeleton,
- do_init_state
- )
-
-importFrom(graphics,plot)
-importFrom(stats,simulate,time,coef,logLik,window)
-importFrom(mvtnorm,dmvnorm,rmvnorm)
-importFrom(deSolve,lsoda)
-importFrom(subplex,subplex)
-
-exportClasses('pomp','mif','pmcmc','probed.pomp','probe.matched.pomp','spect.pomp','spect.matched.pomp')
-
-exportMethods(
- 'plot','show','print','coerce',
- 'dprocess','rprocess','rmeasure','dmeasure','init.state','skeleton',
- 'data.array','summary','coef','logLik','time','time<-','timezero','timezero<-','window',
- 'simulate','pfilter',
- 'particles','mif','continue','coef<-','states','trajectory',
- 'pred.mean','pred.var','filter.mean','conv.rec',
- 'bsmc',
- 'pmcmc','dprior',
- 'spect','probe'
- )
-
-export(
- pomp,
- reulermultinom,
- deulermultinom,
- euler.simulate,
- onestep.simulate,
- onestep.density,
- euler.sim,
- discrete.time.sim,
- onestep.sim,
- onestep.dens,
- gillespie.sim,
- sobol,
- slice.design,
- profile.design,
- bspline.basis,
- periodic.bspline.basis,
- compare.mif,
- nlf,
- traj.match,
- probe.mean,
- probe.var,
- probe.sd,
- probe.period,
- probe.quantile,
- probe.acf,
- probe.cov,
- probe.cor,
- probe.match,
- spect.match
- )
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