[Pomp-commits] r808 - pkg/pomp/inst
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Thu Jan 10 00:07:58 CET 2013
Author: kingaa
Date: 2013-01-10 00:07:58 +0100 (Thu, 10 Jan 2013)
New Revision: 808
Modified:
pkg/pomp/inst/ChangeLog
Log:
- update ChangeLog
Modified: pkg/pomp/inst/ChangeLog
===================================================================
--- pkg/pomp/inst/ChangeLog 2013-01-09 23:06:16 UTC (rev 807)
+++ pkg/pomp/inst/ChangeLog 2013-01-09 23:07:58 UTC (rev 808)
@@ -1,5 +1,187 @@
+2013-01-09 kingaa
+
+ * [r806] R/mif-class.R, R/mif.R, R/pfilter.R, R/pmcmc.R, inst/NEWS,
+ man/mif-class.Rd, man/mif.Rd, man/pfilter.Rd, tests/ou2-mif2.R,
+ tests/ou2-mif2.Rout.save: - integrate MIF2
+ * [r805] R/example.R: - improved 'pompExample'
+ * [r804] tests/bbs-trajmatch.R, tests/bbs-trajmatch.Rout.save,
+ tests/bbs.R, tests/bbs.Rout.save, tests/blowflies.R,
+ tests/blowflies.Rout.save, tests/dacca.R, tests/dacca.Rout.save,
+ tests/dimchecks.R, tests/dimchecks.Rout.save, tests/gillespie.R,
+ tests/gillespie.Rout.save, tests/gompertz.R,
+ tests/gompertz.Rout.save, tests/ou2-bsmc.R,
+ tests/ou2-bsmc.Rout.save, tests/ou2-forecast.R,
+ tests/ou2-forecast.Rout.save, tests/ou2-icfit.R,
+ tests/ou2-icfit.Rout.save, tests/ou2-kalman.R,
+ tests/ou2-kalman.Rout.save, tests/ou2-mif-fp.R,
+ tests/ou2-mif-fp.Rout.save, tests/ou2-mif.R,
+ tests/ou2-mif.Rout.save, tests/ou2-nlf.R,
+ tests/ou2-nlf.Rout.save, tests/ou2-pmcmc.R,
+ tests/ou2-pmcmc.Rout.save, tests/ou2-probe.R,
+ tests/ou2-probe.Rout.save, tests/ou2-procmeas.R,
+ tests/ou2-procmeas.Rout.save, tests/ou2-simulate.R,
+ tests/ou2-simulate.Rout.save, tests/ou2-trajmatch.R,
+ tests/ou2-trajmatch.Rout.save, tests/partrans.R,
+ tests/partrans.Rout.save, tests/pfilter.R,
+ tests/pfilter.Rout.save, tests/pomppomp.R,
+ tests/pomppomp.Rout.save, tests/ricker-bsmc.R,
+ tests/ricker-bsmc.Rout.save, tests/ricker-probe.R,
+ tests/ricker-probe.Rout.save, tests/ricker-spect.R,
+ tests/ricker-spect.Rout.save, tests/ricker.R,
+ tests/ricker.Rout.save, tests/rw2.R, tests/rw2.Rout.save,
+ tests/sir.R, tests/sir.Rout.save, tests/skeleton.R,
+ tests/skeleton.Rout.save, tests/steps.R, tests/steps.Rout.save,
+ tests/synlik.R, tests/synlik.Rout.save, tests/verhulst.R,
+ tests/verhulst.Rout.save: - improved 'pompExample'
+ * [r803] man/blowflies.Rd, man/dacca.Rd, man/example.Rd,
+ man/gompertz.Rd, man/init.state-pomp.Rd, man/ou2.Rd,
+ man/parmat.Rd, man/probe.Rd, man/ricker.Rd, man/rw2.Rd,
+ man/simulate-pomp.Rd, man/sir.Rd, man/spect.Rd,
+ man/traj-match.Rd, man/trajectory-pomp.Rd, man/verhulst.Rd: -
+ improved 'pompExample'
+ * [r802] man/pomp.Rd: - minor fix
+ * [r801] .Rbuildignore, DESCRIPTION, data/bbs.rda,
+ data/blowflies.rda, data/dacca.rda, data/euler.sir.rda,
+ data/gillespie.sir.rda, data/gompertz.rda, data/ou2.rda,
+ data/ricker.rda, data/rw2.rda, data/verhulst.rda, inst/NEWS,
+ inst/examples/bbs.R, inst/examples/euler.sir.R,
+ inst/examples/gillespie.sir.R, inst/examples/sir.R,
+ man/blowflies.Rd, man/dacca.Rd, man/example.Rd, man/gompertz.Rd,
+ man/init.state-pomp.Rd, man/ou2.Rd, man/parmat.Rd, man/probe.Rd,
+ man/ricker.Rd, man/rw2.Rd, man/simulate-pomp.Rd, man/sir.Rd,
+ man/spect.Rd, man/traj-match.Rd, man/trajectory-pomp.Rd,
+ man/verhulst.Rd, tests/bbs-trajmatch.R,
+ tests/bbs-trajmatch.Rout.save, tests/bbs.R, tests/bbs.Rout.save,
+ tests/blowflies.R, tests/blowflies.Rout.save, tests/dacca.R,
+ tests/dacca.Rout.save, tests/dimchecks.R,
+ tests/dimchecks.Rout.save, tests/fhn.Rout.save,
+ tests/filtfail.Rout.save, tests/gillespie.R,
+ tests/gillespie.Rout.save, tests/gompertz.R,
+ tests/gompertz.Rout.save, tests/logistic.Rout.save,
+ tests/ou2-bsmc.R, tests/ou2-bsmc.Rout.save, tests/ou2-forecast.R,
+ tests/ou2-forecast.Rout.save, tests/ou2-icfit.R,
+ tests/ou2-icfit.Rout.save, tests/ou2-kalman.R,
+ tests/ou2-kalman.Rout.save, tests/ou2-mif-fp.R,
+ tests/ou2-mif-fp.Rout.save, tests/ou2-mif.R,
+ tests/ou2-mif.Rout.save, tests/ou2-nlf.R,
+ tests/ou2-nlf.Rout.save, tests/ou2-pmcmc.R,
+ tests/ou2-pmcmc.Rout.save, tests/ou2-probe.R,
+ tests/ou2-probe.Rout.save, tests/ou2-procmeas.R,
+ tests/ou2-procmeas.Rout.save, tests/ou2-simulate.R,
+ tests/ou2-simulate.Rout.save, tests/ou2-trajmatch.R,
+ tests/ou2-trajmatch.Rout.save, tests/partrans.R,
+ tests/partrans.Rout.save, tests/pfilter.R,
+ tests/pfilter.Rout.save, tests/pomppomp.R,
+ tests/pomppomp.Rout.save, tests/ricker-bsmc.R,
+ tests/ricker-bsmc.Rout.save, tests/ricker-probe.R,
+ tests/ricker-probe.Rout.save, tests/ricker-spect.R,
+ tests/ricker-spect.Rout.save, tests/ricker.R,
+ tests/ricker.Rout.save, tests/rw2.R, tests/rw2.Rout.save,
+ tests/sir.R, tests/sir.Rout.save, tests/skeleton.R,
+ tests/skeleton.Rout.save, tests/steps.R, tests/steps.Rout.save,
+ tests/synlik.R, tests/synlik.Rout.save, tests/verhulst.R,
+ tests/verhulst.Rout.save: - get rid of all data()-loadable pomp
+ objects, replacing them with the new 'pompExample' facility
+ * [r800] DESCRIPTION, NAMESPACE, R/example.R, inst/data-R,
+ inst/examples/blowflies.R, inst/examples/dacca.R,
+ inst/examples/ewmeas.csv, inst/examples/gompertz.R,
+ inst/examples/ou2.R, inst/examples/ricker.R, inst/examples/rw2.R,
+ inst/examples/sir.R, inst/examples/verhulst.R: - remove
+ data()-loadable pomp objects in favor of the new 'pompExample'
+ mechanism.
+
+2013-01-08 kingaa
+
+ * [r797] data/bbs.rda, data/blowflies.rda, data/dacca.rda,
+ data/euler.sir.rda, data/gillespie.sir.rda, data/gompertz.rda,
+ data/ou2.rda, data/ricker.rda, data/rw2.rda, data/verhulst.rda: -
+ update data directory
+ * [r794] DESCRIPTION, R/mif.R, tests/bbs.Rout.save,
+ tests/gompertz.Rout.save, tests/ou2-bsmc.Rout.save,
+ tests/ou2-mif.Rout.save: - update tests
+ * [r793] DESCRIPTION, R/pfilter.R, R/pomp-class.R, R/pomp.R: - some
+ changes preparatory to merging in mif2
+
+2012-09-14 kingaa
+
+ * [r780] src/pomp_fun.c: - more informative error message when
+ pomp_fun handler fails
+
+2012-08-22 kingaa
+
+ * [r778] DESCRIPTION, inst/doc/advanced_topics_in_pomp.Rnw,
+ inst/doc/bsmc-ricker-flat-prior.rda,
+ inst/doc/bsmc-ricker-normal-prior.rda,
+ inst/doc/complex-sir-def.rda, inst/doc/fullnat.bst,
+ inst/doc/gompertz-multi-mif.rda,
+ inst/doc/gompertz-pfilter-guess.rda,
+ inst/doc/gompertz-trajmatch.rda, inst/doc/intro_to_pomp.Rnw,
+ inst/doc/nlf-block-boot.rda, inst/doc/nlf-boot.rda,
+ inst/doc/nlf-fit-from-truth.rda, inst/doc/nlf-fits.rda,
+ inst/doc/nlf-lag-tests.rda, inst/doc/nlf-multi-short.rda,
+ inst/doc/plugin-C-code.rda, inst/doc/plugin-R-code.rda,
+ inst/doc/pomp.bib, inst/doc/ricker-comparison.rda,
+ inst/doc/ricker-first-probe.rda, inst/doc/ricker-mif.rda,
+ inst/doc/ricker-probe-match.rda, inst/doc/ricker-probe.rda,
+ inst/doc/sim-sim.rda, inst/doc/sir-pomp-def.rda,
+ inst/doc/vectorized-C-code.rda, inst/doc/vectorized-R-code.rda: -
+ remove vignette codes
+
+2012-08-08 kingaa
+
+ * [r765] DESCRIPTION, inst/doc/advanced_topics_in_pomp.Rnw,
+ inst/doc/advanced_topics_in_pomp.pdf,
+ inst/doc/bsmc-ricker-normal-prior.rda,
+ inst/doc/complex-sir-def.rda,
+ inst/doc/gompertz-pfilter-guess.rda, inst/doc/intro_to_pomp.Rnw,
+ inst/doc/intro_to_pomp.pdf, inst/doc/plugin-C-code.rda,
+ inst/doc/plugin-R-code.rda, inst/doc/ricker-comparison.rda,
+ inst/doc/ricker-first-probe.rda, inst/doc/ricker-probe.rda,
+ inst/doc/sim-sim.rda, inst/doc/sir-pomp-def.rda,
+ inst/doc/vectorized-C-code.rda, inst/doc/vectorized-R-code.rda: -
+ store more intermediate results in the building of the vignettes
+ to make vignette-checking quicker
+
+2012-08-03 kingaa
+
+ * [r757] tests/fhn.R, tests/fhn.Rout.save, tests/ricker-spect.R,
+ tests/ricker-spect.Rout.save, tests/ricker.R,
+ tests/ricker.Rout.save, tests/rw2.R, tests/rw2.Rout.save,
+ tests/sir.R, tests/sir.Rout.save: - more modifications to test
+ files
+ * [r756] DESCRIPTION, inst/NEWS, tests/ou2-probe.R,
+ tests/ou2-probe.Rout.save, tests/ricker-bsmc.R,
+ tests/ricker-bsmc.Rout.save, tests/ricker-probe.R,
+ tests/ricker-probe.Rout.save: - clean up tests
+
+2012-07-31 kingaa
+
+ * [r753] DESCRIPTION, R/authors.R, inst/NEWS,
+ man/pfilter-methods.Rd: - add authors list
+ - add documentation of 'cond.logLik' and 'eff.sample.size'
+
+2012-07-13 kingaa
+
+ * [r752] DESCRIPTION, NAMESPACE, R/aaa.R, R/mif.R,
+ R/pfilter-methods.R, tests/gompertz.R, tests/gompertz.Rout.save,
+ tests/ou2-mif.Rout.save: - add 'eff.sample.size' and
+ 'cond.logLik' methods for 'pfilterd.pomp' objects
+ - make 'non-finite parameters' warning message more informative
+ * [r751] DESCRIPTION, src/dmeasure.c: - fix bug in 'dmeasure' when
+ log=T. bug found by R. Reiner.
+
+2012-07-10 kingaa
+
+ * [r750] DESCRIPTION, R/builder.R, inst/include/pomp.h, src/pomp.h,
+ src/pomp_internal.h, src/sir.c: - fix bug with pompBuilder on mac
+
+2012-07-02 kingaa
+
+ * [r744] DESCRIPTION: - require only R version >= 2.14.1
+
2012-07-01 kingaa
+ * [r743] DESCRIPTION, inst/ChangeLog: - update changelog & date
* [r742] R/pomp-methods.R, R/pomp.R: - force storage.type to double
for params slot
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