2024-10-18 Florian Pein, version 2.1-10
* In multiple .cpp and .h files: set R_NO_REMAP and added Rf_ before all functions (error in the new CRAN version)
* In computeBounds.Rd, critVal.Rd, stepFit.Rd, stepR-package.Rd: added package anchors for Rd \links
2023-11-13 Florian Pein, version 2.1-9
* tests.R: replaced is.null(warnings()) by length(warnings()) == 0 (reported with suggestion by Martin Maechler)
2023-07-27 Florian Pein, version 2.1-8
* DESCRIPTION: added explanation of SMUCE and HSMUCE (CRAN request)
* Rd files: replaced \dontrun by \donttest (CRAN request)
* tests: replaced installed.packages by find.package (CRAN request, faster run time)
* critVal.R, stepsel.R, MRC.R, bounds.R: stores MC simulations in package enviroment
and not in the global enviroment (CRAN request)
2023-07-18 Florian Pein, version 2.1-7
* test-critVal.R: changed tolerance when identifying tests that reject;
added more informative tests for failed test
* made sure that no chache files remain when testing the package (CRAN request)
2023-05-16 Florian Pein, version 2.1-6
* test-critVal.R: added a tolerance (suggested by CRAN Team)
2023-05-16 Florian Pein, version 2.1-6
* test-critVal.R: ensured that alpha is an integer in l. 16 (CRAN error on M1mac)
2023-05-12 Florian Pein, version 2.1-5
* test-critVal.R: correct tolerance in l. 19 (CRAN error on M1mac)
2022-01-30 Florian Pein, version 2.1-4
* Step.cpp: replaced std::sprintf by std::snprintf (CRAN warning)
2022-05-05 Florian Pein, version 2.1-3
* added FCONE's in choleskyDecomposition.cpp, DataLR.cpp, DataJsmurfLR.cpp, DataHjsmurfLR.cpp to deal with USE_FC_LEN_T being set (required for R-4.2.0)
* added skip_on_cran and dontrun for faster tests and examples
* removed \code in first argument of \item in \value in MRC.Rd and stepfitClass.Rd (CRAN note)
2022-01-27 Florian Pein, version 2.1-2
* new maintainer email adress
2020-08-23 Florian Pein, version 2.1-1
* DataLR.cpp: replaced delete by delete [] (indictated by CRAN tests)
* testComputeStat.R: expect_equal instead of expect_identical in line 1466 (indictated by CRAN tests on Mac OS)
2020-08-03 Florian Pein, version 2.1-0
* depends now on R-3.3.0 (digest requires it)
* added import of package lowpassFilter
* computeStat: added input checks for argument signal
* removed Convolve.cpp (is not needed anymore because of import of lowpassFilter)
* new exported function .testSmallScales: for developers only, users should look at the function improveSmallScales in the package clampSeg
* new parametric families jsmurf, jsmurfPS, jsmurfLR, hjsmurf, hjsmurfSPS, hjsmurfLR, 2Param, LR: for developers only, users should look at the functions jsmurf and hilde in package clampSeg
2019-11-03 Florian Pein, version 2.0-4
* new maintainer email adress
* splitted keywords in stepR-package.Rd
2019-01-18 Florian Pein, version 2.0-3
* added ties = mean to call of approxfun in thresh.smuceR to avoid warnings R-devel
(reported with suggestion by Martin Maechler)
* more informative error message when the length of weights is wrong in critVal.R
* depends now on >= R-3.1.0 (imported packages have such a dependency)
2018-04-06 Florian Pein, version 2.0-2
* new maintainer
* removed packages in StepR.Rnw that are not required
* added length(seed) == 1 to avoid if case with condition of length > 1 in monteCarloSimulation.R,
updated tests in test-critVal.R, test-computeBounds.R, test-stepFit.R (reported by Tomas Kalibera)
* updated references in stepR-package.Rd, comouteBounds.Rd, computeStat.Rd, critVal.Rd,
monteCarloSimulation.Rd, parametricFamily.Rd, penalty.Rd, stepFit.Rd
* added references to description
* added \donttest to intervalSystem.Rd
2017-05-19 Florian Pein, version 2.0-1
* small changes in DESCRIPTION and stepR-package.Rd
* added \donttest to stepR-package.Rd, computeBounds.Rd, critVal.Rs, monteCarloSimulation.Rd,
stepFit.Rd because of long execution times
2017-05-15 Florian Pein, version 2.0-0
NEW
* added functions stepFit, critVal, computeStat, computeBounds, monteCarloSimulation:
NAMESPACE: added export(computeStat), export(computeBounds), export(stepFit), export(critVal),
export(monteCarloSimulation)
added files:
in R: computeBounds.R, computeStat.R, critVal.R, intervalSystem.R, monteCarloSimulation.R,
parametricFamily.R, stepFit.R
in src: CallRoutines.cpp, ColMax.cpp, Compute.cpp, Compute.h, Convolve.cpp, CriticalValuesWeights.cpp,
Data.cpp, Data.h, DataGauss.cpp, DataGauss.h, DataHsmuce.cpp, DataHsmuce.h, DataMDependentPS.cpp,
DataMDependentPS.h, DynamicPrograms.cpp, DynamicPrograms.h, InOrdered.cpp, IntervalSystem.cpp,
IntervalSystem.h, IntervalSystemAll.cpp, IntervalSystemAll.h, IntervalSystemAllLengths.cpp,
IntervalSystemAllLengths.h, IntervalSystemDyaLen.cpp, IntervalSystemDyaLen.h,
IntervalSystemDyaLenLengths.cpp, IntervalSystemDyaLenLengths.h, IntervalSystemDyaPar.cpp,
IntervalSystemDyaPar.h, IntervalSystemDyaParLengths.cpp, IntervalSystemDyaParLengths.h,
LocalOptimum.cpp, LocalOptimum.h, SingleBounds.cpp, SingleBounds.h
in man: computeBounds.Rd, computeStat.Rd, critVal.Rd, family.Rd, intervalSystem.Rd, monteCarloSimultion.Rd,
parametricFamily.Rd, penalty.Rd, stepFit.Rd
in tests: testthat.R, folder testthat, therein: test-computeBounds.R, test-computeStat.R, test-critVal.R,
test-monteCarloSimulation.R, test-stepFit.R
folder inst/tests/comparisons, therein: indices.R, localCost.R, localEst.R, penalisation.R, singleBounds.R,
singleStat.R
* added imports of Rcpp (>= 0.12.3), R.cache (>= 0.10.0) and digest (>= 0.6.9), methods
added linking to Rcpp
added suggests of testthat (>= 1.0.0), knitr
* NAMESPACE: added importFrom(methods, is) and importFrom(Rcpp, evalCpp)
* added a vignette 'StepR': added folder vignettes, therein: StepR.Rnw, references.bib,
added VignetteBuilder: knitr in DESCRIPTION
CHANGES
* changed author list, title and description of the package
* changed dependency on R to R (>= 3.0.0)
* NAMESPACE: replaced import(stats) by importFrom(stats, approxfun, AIC, BIC, convolve, dnorm,
ecdf, fft, filter, fitted, mvfft, pnorm, qnorm, quantile, resid, rexp, rnorm, sd)
* sdrobnorm: input is now checked, NAs will be removed with a warning,
if the number of observations is too small for computing the result NA is returned with a warning
instead of 0 or an error
added arguments supressWarningNA = FALSE, supressWarningResultNA
added test/testthat/test-sdrobnorm.R
updated man sdrobnorm.Rd
* stepfit: code of stepfit.R is moved to stepFit.R, documentation stepfit.Rd is renamed to stepfitClass.Rd
* man: changed style of the references to suggested form
* ChangeLog: added version numbers of the package
DEPRECATED
* added deprecation warning as a packageStartupMessage, added zzz.R
* added deprecation warning to the documentation of BesselPolynomial, contMC, dfilter, jsmurf, transit, MRC,
MRC.1000, MRC.asymptotic, MRC.asymptotic.dyadic, bounds, family, smuceR
2017-04-18 Florian Pein, version 1.0-7
* registration of functions: added src/init.c, library is registered by useDynLib(stepR, .registration = TRUE),
replaced exportPattern by export (CRAN Note),
changed .NAME arguments in .Call statements in steppath.R, stepcand.R, stepbound.R
* Step.cpp: added missing PROTECT()s (reported by Tomas Kalibera, https://github.com/kalibera/rchk)
2016-10-10 Florian Pein, version 1.0-6
* BinTree.h, Bounds.cpp, Jump.h, Step.h: define NO_C_HEADERS only for R versions older than 3.3.0
added #include <cstddef> and using std::size_t if macro is defined
(CRAN notes and feedback from Brian Ripley)
* Step.cpp: added #include <cstdio>
* StepGaussVar.cpp, StepPoisson.cpp, StepBinom.cpp: added #include <cmath>
2016-09-29 Florian Pein, version 1.0-5
* BinTree.h, Bounds.cpp, Jump.h, Step.h: added #define NO_C_HEADERS true to disable C headers;
replaced them by C++ headers cstdlib, cstdio, climits, cmath;
changed order of headers (R headers should be the last ones)
* Step.cpp, StepPoisson.cpp, StepGaussVar.cpp, StepBinom.cpp: added std:: in front of sprintf, log
(reported by http://www.stats.ox.ac.uk/pub/bdr/C++Solaris)
* BinTree.h: changed Stack__H into BINTREE__H
* Jump.cpp: removed R headers (they are included by Jump.h)
* CITATION: changed url to canonical format (https://CRAN.R-project.org/package=stepR)
2016-03-24 Florian Pein, version 1.0-4
* NAMESPACE: added importFrom("graphics", "lines", "par", "plot", "points") (CRAN notes)
* DESCRIPTION: added graphics as a dependency
2015-06-05 Thomas Hotz
* jumpint.R, jumpint.Rd: plotting of confidence bands for binomial is now possible for expected values (dataspace = TRUE) as in lines.stepfit.
2015-06-04 Thomas Hotz, version 1.0-3
* stepR-package.Rd: added references Boysen et al., Yao
* stepbound.Rd: updated reference Frick et al.
* stepbound.Rd: updated reference Hotz, Schütte et al.
* stepR-package.Rd, compare.Rd, smuceR.Rd: updated reference Futschik et al.
* stepR-package.Rd, compare.Rd, MRC.Rd, smuceR.Rd, stepbound.Rd, stepsel.Rd: inserted "line breaks" into references
* bounds.Rd, MRC.Rd: no longer mention vignette (reported by Theresa Schüler)
* DESCRIPTION: Timo Aspelmeier is new maintainer (and presumably another new author)
* ChangeLog: corrected dates of last two changes (reported by Timo Aspelmeier)
2015-04-29 Thomas Hotz, version 1.0-2
* family.Rd: corrected explanation of param for family Gauss (reported by Florian Pein)
* steppath.R, tests.R: accordingly corrected calculation of logLik if that param had been specified and
added test for its calculation
* sdrobnorm.Rd: explained reference (reported by Florian Pein)
* DESCRIPTION: added Florian Pein as contributor, removed inaccurate date
* bug-fix release
2015-04-21 Thomas Hotz
* jumpint.R: corrected plotting of confidence bands (reported and solution suggested by by Florian Pein)
* stebound.R: corrected R to C style indices for bounds.rev$start (also by Florian Pein)
* smuceR.R: corrected computation of alpha when MRC.1000 is used (also by Florian Pein)
2015-03-04 Thomas Hotz, version 1.0-1
* StepPoisson.cpp, StepBinom.cpp: added explicit casting in log() to ensure compilation under solaris
2015-02-16 Thomas Hotz, version 1.0-0
* first version (1.0) on CRAN