BUG FIX project_to_curve(): Return error message when x or s contain
insufficient rows.
svg() to pdf() as support for svg()
might be optional.project_to_curve(): Fix pass-by-reference bug, issue #33. Thanks
to @szcf-weiya for detecting and fixing this bug!BUG FIX: Fix warning in stats::approx() due to changes made in R 3.6.
principal.curve() and get.lam().BUG FIX: Removed extra dependencies in princurve by removing vignettes; fixes #28.
principal.curve() and get.lam().DOCUMENTATION: Use the magick package to generate animated GIFs in
the vignette, instead of the animation package, because
animation uses ffmpeg which is not installed on all CRAN systems.
principal.curve() or get.lam().DOCUMENTATION: Added vignettes on the algorithm behind princurve and on benchmarking results between princurve 1.1 and 2.1.
BUG FIX principal_curve(): Don't apply rownames to curve as approx_points could
be set to a different value other than nrow(x).
TESTING: Skip comparison unit test between princurve 1.1 and 2.1 on CRAN.
MINOR CHANGE project_to_curve(): Attempt to fix rchk warnings by not using
x(i, j) = v notation but instead x[j * x.nrow() + i] = v.
DOCUMENTATION: Fix in README documentation.
BUG FIX principal_curve(): avoid division by zero when the initial principal curve
has already converged.
BUG FIX project_to_curve(): set dimension names of outputted s correctly.
DOCUMENTATION: Added cran-comments.md and revdep to repository.
MINOR CHANGE: Removed adjust_range(); use grDevices::extendrange() instead.
TESTING start_circle(): Added unit tests.
BUG FIX start_circle(): Make sure circle is centered and scaled correctly.
MINOR CHANGE: Move smoother functions from inside principal_curve() to
a list smoother_functions.
TESTING smoother_functions: Added tests to ensure each of the smoother
functions work correctly.
SPEED UP project_to_curve(): Significantly speed up this function by not
allocation objects that don't need allocation, and pre-allocating objects
that do.
SPEED UP principal_curve(): Added approx_points parameter. This allows
approximation of the curve between smoothing and projection, to ensure
principal_curve() scales well to higher numbers of samples.
BUG FIX: Fixed issues with legacy principal.curve() and get.lam() (#8).
TESTING: Perform direct comparison between the current princurve and
princurve 1.1-12 to check whether principal.curve() and get.lam() produce
output with exactly the same format and almost exactly the same values.
SIGNIFICANT CHANGE: Remove the ord parameter from project_to_curve(),
in order to reduce the amount of Rcpp code a little bit.
DOCUMENTATION: Improved citations (#10).
DOCUMENTATION: Improved news (#11).
SPEED UP project_to_curve(): Do not compute lambda accurately as it
is only used to order the points in x.
MINOR CHANGE: Added ... argument to whiskers().
DOCUMENTATION: Minor fix in output documentation of principal_curve().
DOCUMENTATION: Added more information to the README.
MINOR CHANGE: Support both news() and markdown news on GitHub.
SIGNIFICANT CHANGES: Reimplemented project_to_curve() completely in
Rcpp, thereby completely removing all Fortran code from princurve.
TESTING: test both on linux and osx.
TESTING: Added tests to ensure project_to_curve() works similar to
legacy get.lam().
MAINTAINER: Changed the maintainer from Andreas Weingessel to Robrecht Cannoodt.
SIGNIFICANT CHANGES: Added functions principal_curve() and
project_to_curve() with a slightly different interface than
principal.curve() and get.lam().
DEPRECATION: Prepare get.lam() and principal.curve() for deprecation
planned on 2018-07-01. Will contact maintainers of reverse depending
packages.
BUG FIX: Allow start_circle() to work when the number of dimensions
is larger than 2.
DOCUMENTATION: Rewrite the README in markdown.
DOCUMENTATION: Use roxygen2 for the documentation.
MINOR CHANGES: Clean up code to ensure consistent code formatting.
TESTING: Added tests for principal_curve() and project_to_curve().
TESTING: Enabled continuous integration using travis-ci.org and ci.appveyor.com.
MINOR CHANGES: Update for R 2.0.
whiskers()BENCHMARKING: For larger data sets, most of the time is spent in get.lam().
BUG FIX: smooth.spline(x,y) will only use and return values for
"unique" {x}:s. This means that the fitted {y}:s maybe be fewer than
the input vector. In order to control for this, we use predict().
NEW FEATURE: Now smoother can also be a function taking arguments
lambda, xj and ... and return y of the same length
as lambda and xj.
NEW FEATURE principal.curve(): Arguments start and stretch
can be NULL, which behaves the same as if they are "missing"
[which is hard to emulate with for instance do.call()].
NEW FEATURE: Added converged and nbrOfIterations to return structure.
SPEED UP/MEMORY OPTIMIZATION: Now the nxp matrix 's' is allocated only once. Before it was built up using cbind() once per iteration.
SPEED UP: Now the smoother function is identified/created before starting the algorithm, and not once per dimension and iteration.
MEMORY OPTIMISATION principal.curve(): Now the result matrix
allocated as doubles, not logicals (as NA is), in order to
prevent a coersion.
BUG FIX: An error was thrown if smoother was a function.
MINOR CHANGES: Cleaned up source code (removed comments).
MINOR CHANGE: Depend on R >= 1.9.0
MINOR CHANGE: Changed license to GPL version 2 or newer, as granted by Trevor Hastie.
MINOR CHANGE: Don't require defunct modreg.
PACKAGE to Fortran calls.T to TRUE.MINOR CHANGE plot.principal.curve(): Rename argument object to x.
MINOR CHANGE lines.principal.curve(): Rename argument object to x.
MINOR CHANGE points.principal.curve(): Rename argument object to x.
MINOR CHANGE: Rename internal functionstart.circle() to startCircle().
DESCRIPTION: Added Title and Maintainer field.
MINOR CHANGES: Changed F to FALSE.
DOCUMENTATION: Added keywords to get.lam().
DOCUMENTATION: Expanded documentation of principal.curve():
added default values to usage, description, keywords and aliases.
MINOR CHANGES: Changed precision in getlam.f from v(2,10) to v(2,p).