2008-08-15  kingaa

	* tests/sir.R, tests/sir.Rout.save: improve test of SIR model
	* tests/logistic.Rout.save:
	* DESCRIPTION, src/euler.c: fix bug in Euler step

2008-08-14  kingaa

	* DESCRIPTION: make description more descriptive
	* inst/examples/sir.R: put trajectory computation into SIR example

2008-08-13  kingaa

	* data/ou2.rda, inst/doc/compiled_code_in_pomp.pdf,
	  inst/doc/intro_to_pomp.pdf:
	* inst/ChangeLog:
	* inst/examples/sir.c: cosmetic
	* DESCRIPTION, NAMESPACE, R/aaa.R, R/pomp.R, R/trajectory-pomp.R,
	  data/ou2.rda, inst/examples/logistic.R, inst/examples/sir.R,
	  inst/examples/sir.c, man/mif-class.Rd, man/pomp-class.Rd,
	  man/pomp.Rd, man/skeleton-pomp.Rd, man/trajectory-pomp.Rd,
	  src/skeleton.c, tests/logistic.R, tests/logistic.Rout.save,
	  tests/sir.R, tests/sir.Rout.save: add support for computing
	  trajectories of the deterministic skeleton
	  the skeleton must now be specified when the pomp is created: if
	  the pomp is a discrete-time system, 'skeleton.map' is used to
	  specify its deterministic skeleton; if it is a continuous-time
	  system, 'skeleton.vectorfield' is used.
	  the new method 'trajectory' will, in the first case, iterate the
	  map to produce an itinerary and in the second case, it will call
	  'lsoda' from the now-required 'odesolve' package to compute the
	  trajectory.
	  some changes to the basic 'pomp' structure have been made to
	  facilitate all this.
	  specifically, a new slot, 'skeleton-type', distinguishes between
	  discrete-time and continuous-time systems

2008-08-01  kingaa

	* inst/ChangeLog:
	* inst/ChangeLog:
	* inst/examples/logistic.R: make dprocess depend on 'log'

2008-07-31  kingaa

	* inst/NEWS:
	* DESCRIPTION:
	* R/mif.R: improved error handling in mif
	* man/pomp.Rd: fix inaccuracy in documentation of rmeasure and
	  dmeasure arguments

2008-07-29  kingaa

	* inst/NEWS:
	* DESCRIPTION:
	* R/mif.R: bug fix in convergence record storage
	* R/mif.R: cosmetic

2008-07-26  kingaa

	* DESCRIPTION, inst/ChangeLog, inst/NEWS,
	  inst/doc/compiled_code_in_pomp.pdf, inst/doc/intro_to_pomp.Rnw,
	  inst/doc/intro_to_pomp.pdf, src/ou2.c: bug fix in
	  "intro_to_pomp.Rnw"

2008-07-25  kingaa

	* R/pfilter-mif.R:
	* inst/NEWS:
	* inst/NEWS:
	* data/ou2.rda, inst/ChangeLog, inst/doc/compiled_code_in_pomp.pdf,
	  inst/doc/intro_to_pomp.pdf:
	* tests/ou2-mif.Rout.save: no need to set rw.sd for parameters that
	  aren't estimated
	* inst/examples/logistic.R, inst/examples/rw2.R,
	  inst/examples/sir.R, tests/examples.R: add a test of the examples
	  in 'inst/examples' to the 'tests' directory
	  modify the sir.R example so that it attempts to build a
	  shared-object library only if .Platform$OS.type=='unix'
	* inst/doc/intro_to_pomp.Rnw, tests/ou2-mif.R: no need to include
	  zeros in 'rw.sd'
	* man/mif.Rd: improve documentation regarding arguments to mif
	* R/aaa.R: remove a whole lot of stuff that somehow got in from
	  pomp.devel
	* inst/examples/sir.R: fix up R-function version
	* R/aaa.R: improve error handling: fix language and use sQuote,
	  dQuote where appropriate
	* DESCRIPTION:
	* R/compare.mif.R, R/dmeasure-pomp.R, R/dprocess-pomp.R, R/euler.R,
	  R/init.state-pomp.R, R/mif-methods.R, R/mif.R, R/particles-mif.R,
	  R/pfilter.R, R/plot-pomp.R, R/pomp-methods.R, R/pomp.R,
	  R/rmeasure-pomp.R, R/rprocess-pomp.R, R/simulate-pomp.R,
	  R/skeleton-pomp.R, R/sobol.R: improve error handling: fix
	  language and use sQuote, dQuote where appropriate
	* R/mif.R: trap as error parameters (including ivps) which are to
	  be estimated but which have zero rw.sd

2008-07-22  kingaa

	* inst/NEWS:
	* inst/ChangeLog:
	* inst/ChangeLog, inst/O_CHANGES:

2008-07-20  kingaa

	* DESCRIPTION, NAMESPACE, R/aaa.R, R/bsplines.R, R/compare.mif.R,
	  R/dmeasure-pomp.R, R/dprocess-pomp.R, R/euler.R,
	  R/eulermultinom.R, R/init.state-pomp.R, R/mif-methods.R, R/mif.R,
	  R/particles-mif.R, R/pfilter-mif.R, R/pfilter.R, R/plot-pomp.R,
	  R/pomp-methods.R, R/pomp.R, R/rmeasure-pomp.R, R/rprocess-pomp.R,
	  R/simulate-pomp.R, R/skeleton-pomp.R, R/sobol.R, inst,
	  inst/ChangeLog, inst/GPL, inst/LICENSE, inst/NEWS, inst/doc,
	  inst/doc/Makefile, inst/doc/compiled_code_in_pomp.Rnw,
	  inst/doc/compiled_code_in_pomp.pdf, inst/doc/intro_to_pomp.Rnw,
	  inst/doc/intro_to_pomp.pdf, inst/examples,
	  inst/examples/logistic.R, inst/examples/rw2.R,
	  inst/examples/sir.R, inst/examples/sir.c, inst/include,
	  inst/include/pomp.h, man/bsplines.Rd, man/dmeasure-pomp.Rd,
	  man/dprocess-pomp.Rd, man/euler.Rd, man/eulermultinom.Rd,
	  man/init.state-pomp.Rd, man/mif-class.Rd, man/mif-methods.Rd,
	  man/mif.Rd, man/ou2.Rd, man/particles-mif.Rd, man/pfilter.Rd,
	  man/pomp-class.Rd, man/pomp-methods.Rd, man/pomp-package.Rd,
	  man/pomp.Rd, man/rmeasure-pomp.Rd, man/rprocess-pomp.Rd,
	  man/simulate-pomp.Rd, man/skeleton-pomp.Rd, man/sobol.Rd, src,
	  src/bspline.c, src/dmeasure.c, src/dprocess.c, src/dsobol.c,
	  src/euler.c, src/eulermultinom.c, src/initstate.c,
	  src/lookup_table.c, src/ou2.c, src/pomp.h, src/pomp_fun.c,
	  src/pomp_internal.h, src/resample.c, src/rmeasure.c,
	  src/rprocess.c, src/sir.c, src/skeleton.c, src/sobol.f, tests,
	  tests/logistic.R, tests/logistic.Rout.save, tests/ou2-kalman.R,
	  tests/ou2-kalman.Rout.save, tests/ou2-mif.R,
	  tests/ou2-mif.Rout.save, tests/ou2-simulate.R,
	  tests/ou2-simulate.Rout.save, tests/rw2.R, tests/rw2.Rout.save,
	  tests/sir.R, tests/sir.Rout.save: initial revision
	* data/ou2.rda:
	* data:

2007-06-25  stefan7th

	* ., R, man: Email in Readme changed