NEWS.md
Added intermediate argument to np.svariso.corr() which allows to return intermediate computations in $kriging output component (these calculations can be reused, e.g. for bootstrap).
Added verbose argument to np.svariso.corr() to avoid writing info messages to the console (it can be disabled even if plot = TRUE).
Changes in h.cv.bin.data() when objective == "GCV" to adapt it to the heteroscedastic case. Warning: there may be differences with selected bandwidths in older versions.
Changes in simage(), spersp() and spoints(): former argument graphics.reset renamed as reset, and changed the default value to TRUE (to restore user’s graphical options).
Added some references in the description field of ‘DESCRIPTION’ file.
Avoided the use of options(warn=-1) in h.cv() methods (CRAN requirement).
Added on.exit(par(old.par)) in plot.fitgeo() and scattersplot.default() to make sure that you the user’s options are not changed (CRAN suggestion).
Improvements in documentation (added return values, added examples in npden(), removed \dontrun{} use and commented code lines in examples…).
Renamed the admissible values of the lost parameter in h.cv.svar.bin() and np.svariso.hcv().
Changed ‘NEWS.md’ formatting and suppressed the default addition of CRAN release dates (pkgdown).
Updated ‘npsp.Rmd’ vignette.
Added mask.window component to data.grid class.
Added new window parameter to data.grid(), bining(), np.fitgeo.default() and mask() methods.
Minor changes in FORTRAN code (to avoid rank mismatch in ‘dsytrfi.f90’, flagged with an error in gfortran 10; CRAN policy requirement).
Added parameter xlim = NULL in variogram plot methods (plot.fitsvar(), plot.svar.bin() and plot.np.svar()).
np.kriging() methods now recompute residuals when any(ngrid != object$grid$n)).
Updated np.fitgeo() S3 methods.
Changes in ‘Makevars’ to remove module files created by the Fortran compilation.
Fixed bug in h.cv.bin.data() (match.arg(objective)).
‘README.md’ is now generated from ‘README.Rmd’.
Updated roxygen documentation to avoid warnings.
kriging.np() methods renamed as np.kriging() (for consistency).
Minor changes in FORTRAN code (related to error(i, label) function, to avoid LTO warnings from gcc9, which does not detect Fortran optional arguments).
Changes in pkgdown documentation (‘NEWS.Rmd’, ‘README.Rmd’…).
Changes in ‘npsp.Rmd’ vignette.
Added as.data.grid() S3 generic and as.data.grid.SpatialGridDataFrame() method.
Added as.bin.data.SpatialGridDataFrame() S3 method.
Added parameter corr.svar in np.fitgeo() S3 methods.
Changed the default value of discretize = nrow(coords) > 256 in varcov.isotropic().
Added parameter optional in as.data.frame.data.grid() (for S3 compatibility).
Changes in svar.grid() S3-methods:
Removed S3-method svar.grid.fitsvar().
Changed the default value of n = 256 in svar.grid.svarmod().
Changes in sv() S3-methods: sv.svarmod() and sv.sb.iso().
Updated roxygen2 documentation in “data.grid.R”, “np.svar.R” and “svar.grid”.
Changes in kriging.np:
S3 generic function.
kriging.np renamed as kriging.np.default.
Added kriging.np.np.geo S3 method.
Added ngrid parameter.
Added residuals.np.geo() and plot.fitgeo() S3 methods.
Changes in np.fitgeo() S3 methods.
Updated (roxygen2) documentation in “npsp-package.R”.
“npsp-plot.R” renamed as “svar.plot.R”.
Added np.geo S3 class (nonparametric geostatistical model),
constructor function and methods.
Added plot() S3 method for np.geo class.
Added residuals() S3 method for np.geo class.
Added np.fitgeo() S3 generic function and methods (np.fitgeo.default, np.fitgeo.locpol.bin and np.fitgeo.np.geo).
Fixed bug in np.svariso.hcv() (calls h.cv.svar.bin() instead of h.cv.bin.data(); thanks to Tomas Cotos-Yañez).
Added a website for the package (with pkgdown).
Added ‘NEWS.md’ and ’_pkgdown.yml’.
Added some vignettes (pkgdown articles): “npsp.Rmd”, “precipitation.Rmd”, “krigstat.Rmd”, “docs/aquifer.Rmd”, “docs/Introduccion.Rmd”.
Added scattersplot() S3 generic function (and methods).
Added (some) support for sp classes.
Added spoints() and scattersplot() methods for objects of class SpatialPointsDataFrame.
Added as.sp() generic function.
Added as.sp.grid.par() and as.sp.data.grid() methods.
Added precipitation data set.
Added as.data.frame.data.grid() S3 method.
Added kriging.np() and kriging.simple() functions.
Added kriging.simple.solve() internal function.
Methods as.spam(), chol.spam() and solve.spam() imported from package spam.
Added .DPOSV_R() interface to LAPACK routine DPOSV.
Minor changes in plot.fitsvar() (lwd parameter is passed to lines() when add = TRUE).
Added the registration of ‘native routines’ (.Fortran calls).
Added ‘src/init.c’ and @useDynLib npsp, .registration = TRUE.
Fortran routine binning renamed as binning_r.
Updated ‘README.md’.
Added svar.grid() S3 class (discretized semivariogram),
generic function (constructor) and methods.
Added svar.grid.fitsvar() and svar.grid.svarmod() methods.
Major changes in varcov.isotropic().
Returns 0 if h < .Machine$double.eps.
Added discretize parameter (if TRUE, the default value, the variogram is previously discretized).
Minor changes in covar.svarmod(). Added discretize parameter (if TRUE the variogram is discretized as a first step).
Added plot() S3 method for svarmod class.
Minor changes in covar.svarmod() (argument ... is passed to sv()).
fitsvar.sb.iso returns additional components ($fit$w and $esv).
Added .DNRM2_R() internal function (interface to BLAS routine DNRM2).
Minor changes in FORTRAN code (to avoid warnings and obsolescent features: tql2.f, lp_module.f90).
Fixed bug in mask.bin.data() and mask.locpol.bin() (when warn = FALSE, now it is not changed by filter.lp).
Fixed bug in FORTRAN function KTW(u) (in the normalizing constant; thanks to Tomas Cotos-Yañez).
Added ‘README.md’
Changes in FORTRAN code to avoid warnings compiling with -Wall -pedantic
Changed the default value of legend.shrink to 1.0 in simage.default() and spoints.default.
Fixed bug in spoints.default (when add = TRUE).
Minor changes in as.bin.data.data.grid().
Added as.bin.data.bin.data(), as.bin.den.bin.den() and as.bin.den.data.grid() methods.
Removed as.bin.den.bin.data() (bin.den method is now used).
Added h.cv.svar.bin() (and .wloss() internal function).
Minor changes in h.cv.bin.den().
Minor changes in h.cv.bin.data() and hcv.data() related to warning handling (the default value of warn parameter was also changed to TRUE).
Changed the default value of ncv parameter in h.cv.bin.data() and h.cv.bin.den() (ncv = 2 when objective ==CV``).
Fixed bug in np.svariso.corr (due to extrapolations with approx()).
Changes to conform to the new CRAN policy (IMPORTS).
Major changes in h.cv.bin.data().
Improved binning approximations of auxiliary quantities.
Argument cov.bin also admits a semivariogram model
Approximate computation of the covariance matrix of the binned data (added .compute.masked() internal function).
Changes in hcv.data().
Argument cov renamed as cov.dat, also admits a semivariogram model.
Improved computations when objective = 'MASE'.
Minor changes in fortran code (routine lp in lp_module.f90 masks binning nodes with bin%w(i) < 0).
File ‘inst/CHANGES’ renamed as ‘ChangeLog’.
Added npsp.tolerance().
Added mask() S3 generic function and methods (mask.default, mask.bin.den, mask.bin.data and mask.locpol.bin).
Minor changes on coords.data.grid() (new parameter masked, defaults to FALSE).
Minor changes on predict.locpol.bin() (when !is.null(object$mask) …).
Added predict.np.den().
Changes on fitsvar.sb.iso() to solve non-strictly convex quadratic programs (and to avoid rounding errors in solve.QP, the constraints might not hold exactly…).
Minor changes on disc.sb() (computation of the discretization nodes when dk = 0).
Added rule() and rule.binning() default S3 method (.rice.rule()).
Changed the default value of nbin parameter in binning(), bin.den() and locpol.default().
Added rule.svar() S3 methods. Changed the default value of nlags parameter in svar.bin.
Minor changes on h.cv.bin.data and hcv.data (improved computations).
Minor changes on spoints.default (xlab and ylab default values).
Minor changes on spersp.default (to allow for non matrix argument s of appropriate length).
Changes on as.variogram.np.svar (equivalent number of contributions).
Changes on h.cv.bin.data and hcv.data (improved computations, warn parameter added, …).
Changed the default value of hat.bin argument to TRUE in locpol.svar.bin, np.svar, np.svariso and np.svariso.corr (to allow for the computation of approximated estimation variances - fitsvar.sb.iso).
Changes on fitsvar.sb.iso() (min.contrib, gstat -> linear method, …).
Added plot() S3 methods for svar.bin and np.svar classes.
Updated demos aquifer and variogram.
simage.default() calls box() to avoid overplotting of the axis lines.
Minor changes on FORTRAN routines set_bin_den, set_grid_bin (‘grid_module.f90’) and lp (‘lp_module.f90’) to avoid problems with large covariate/coordinate values. Warning: there may be differences with estimates computed with older versions.
Minor changes on FORTRAN routine predict_locpol_bin (in ‘lp_module.f90’) to allow for extrapolations (e.g. near the grid border).
Minor changes on fitsvar.sb.iso, now returns an object of class fitsvar (and inherits sb.iso).
Added plot() S3 methods for np.den and fitsvar classes.
Added hot.colors() (and .rev.colorRampPalette()).
Added cpu.time() and .cpu.time.ini() (npsp-internals).
Updated demo aquifer.
Added as.bin.data generic function.
Minor changes on spersp.default and simage.default to allow for non matrix arguments (of appropriate length) z and s respectively.
Minor changes on FORTRAN routine lp (in ‘lp_module.f90’) to avoid potential problems with memory allocation in case of error (“there is not enough data in neighborhoods”).
Updated demo aquifer (illustrating the use of np.svariso.corr()).
Minor changes on bin.data, locpol.bin, svar.bin and np.svar to allow for a dim attribute in argument y.
Minor changes on disc.sb() (computation of the discretization nodes when dk = 0).
Fixed bug (when degree = 0) in fortran subroutine lp (lp_module.f90).
Added splot(), scolor() and jet.colors() (utilities for plotting with a color scale).
Added spoints(), spersp() and simage() S3 generic functions (and methods).
Changes on package demos (to not depend on package fields for graphic display).
Updated documentation (aquifer, earthquakes, locpol, binning, h.cv, …).
Added np.svariso.corr() function (nonparametric bias-corrected variogram estimation under non-constant trend).
Renamed svarisonp() and svarisohcv() to np.svariso() and np.svariso.hcv() respectively.
Minor changes on np.svariso.hcv().
Improvements in the computation of the optimal bandwidth with the GCV criterion for dependent data (h.cv() and hcv.data() functions).
Updated documentation of np.svar, locpol and binning.
Added varcov() S3 generic function (and methods).
Changes on covar() (it is now an S3 generic function).
Changes on svarmod() and svarmod.sb.iso() (type specifies a subclass of svarmod).
Minor bug fixes in h.cv() and hcv.data() (to ensure binning/data hat matrix computation when needed).
Added aquifer package demo.
NAMESPACE file is now automatically generated by roxygen2.
Changed dependency on package quadprog from Depends to Imports.
Changes on Fortran code to conform to the Fortran 90/95 standard (CRAN policy requirement). The implementation of additional grid types is postponed until Fortran compilers used at CRAN (specially in the case of Mac OS X) support the required Fortran 2003 features (mainly type-bound procedures).
Added explicit dependencies to src/Makevars to allow parallel make.
Changed the default value of hat.bin argument to FALSE in locpol and predict.locpol.bin.
Added a default value for maxlag argument in svar.bin, svariso, np.svar, svarisonp and svarisohcv.
Changed the default value of nx argument in fitsvar.sb.iso to avoid “Error in solve.QP(Dmat, dvec, Amat, bvec) : matrix D in quadratic function is not positive definite!”.
Updated documentation.
Added bin.den S3 class and methods and as.bin.den generic function.
Added np.den S3 class and generic function.
Added locpol.bin.den (alias of np.den.bin.den) and h.cv.bin.den methods.
Added earthquakes and aquifer data sets.
Added a dimnames argument to grid.par function (constructor of the class of the same name).
Minor changes on binning() and interp.data.grid().
Completed the package documentation (using roxygen2).
Changes on svarmod, added svarmodels (svarmod.R).
Changes on as.variomodel and as.vgm (npsp-geoR.R and npsp-gstat.R, interoperability with geoR and gstat, respectively).
Some minor changes to pass (for the first time) R CMD check without notes or warnings (.onLoad -> .onAttach, …).
Major changes in R functions locpol.default, locpol.bin.data and svarisonp:
Added a new option to set the degree of the local polynomial used.
Added a new option to compute (partial) derivative estimates.
Added an option to enable/disable binning hat matrix computation.
Added an option to enable/disable data hat matrix computation in predict.locpol.bin.
Major changes in fortran code (lp_module.f90, svar_module.f90, linreg_module.f90):
Weighted linear regression allows for rank-deficient matrices (DGELSYR fortran routine, a modification of LAPACK DGELSY).
New functionalities (degree, derivatives…)
Changes on Fortran-R interfaces.
Added svarmod and sb.iso (extends svarmod) S3 classes and methods.
Added svar() S3 generic and covar() functions.
Added fitsvar.sb.iso(), kappa.sb() and disc.sb() functions.
Added as.vgm() S3 generic (interoperability with gstat).
Added h.cv.bin() and h.cv() functions (EXPERIMENTAL).
Changes on locpolhcv() and svarisohcv().
Changes on predict.locpol.bin() (new fortran code).
Added predict.locpol.bin() and S3 generic function interp() (interp.grid.par() and interp.data.grid() methods).
Changes on R-Fortran interfaces (parameters for type(grid_bin) :: bin, lp_raw replaces est_bin, …).
Added hopt.cv(), locpolhcv() and svarisohcv() functions (EXPERIMENTAL).
Changes on FORTRAN and R code to handle missing values (EXPERIMENTAL) (NAs on input & output).
binning() is again a standard function (interface to the fortran routine binning).
Added svar.bin (extends bin.data), and np.svar (extends svar.bin) S3 classes and methods.
Changes on svariso() (returns an object of class svar.bin, …).
Added svarisonp() and as.variogram() S3 generic functions. svarisonp.default replaces svarisonp (interface to the fortran routine svar_iso_np).
Added variogram package demo.
Added grid.par, data.grid, bin.data and locpol.bin S3 classes and methods.
Added coords() and coordvalues() S3 generic functions.
Added binning() and locpol() S3 generic functions. binning.default replaces set_bin (interface to the fortran routine set_bin).locpol.default replaces locpolbin (interface to the fortran routine est_bin).
Added locpol.bin.data() (interface to the fortran routine lp_bin).
Added datagrid, binning and locpol package demos.
Added svarisonp() (interface to the fortran routine svar_iso_np).
Added svariso() (interface to the fortran routine svar_iso_bin).
Added as.variogram.svariso() (interoperability with geoR).