CVS commit: pkgsrc/geography/R-spatstat.linnet

["Makoto Fujiwara" <mef%netbsd.org@localhost>]

Module Name:    pkgsrc
Committed By:   mef
Date:           Fri Jun 12 14:04:37 UTC 2026

Modified Files:
        pkgsrc/geography/R-spatstat.linnet: Makefile distinfo

Log Message:
(geography/R-spatstat.linnet) Update 3.2.5 to 3.5.1

        CHANGES IN spatstat.linnet VERSION 3.5-1

OVERVIEW

    o Minor improvements.

NEW FUNCTIONS

    o intensity.lppm
    Intensity of a fitted point process model on a linear network.

        CHANGES IN spatstat.linnet VERSION 3.5-0

OVERVIEW

    o More flexible interpretation of arguments "lambda = <lppm>"
    for inhomogeneous summary statistics.

    o Merge tiles of a tessellation on a network.

    o Specify the 'theoretical' value of the summary function in 'envelope'.

    o Minor improvements and bug fixes

NEW FUNCTIONS

    o mergeTiles.lintess
    Merge some of the tiles in a tessellation on a linear network.

SIGNIFICANT USER-VISIBLE CHANGES

    o linearKcross.inhom, linearKdot.inhom,
    linearpcfcross.inhom, linearpcfdot.inhom
    When argument 'lambdaI', 'lambdaJ' or 'lambdadot' is a point process model,
    the interpretation now depends on whether the model is multitype or
    unmarked.  A multitype point process model will be interpreted as
    providing the intensity for each possible type of point. An unmarked point
    process model will be interpreted as providing the intensity only for the
    relevant type of point (type i only, type j only, or total intensity
    for all types of points).

    o density.lpp
    Argument 'weights' can be logical valued.

    o relrisk.lpp
    Argument 'weights' can be logical valued.

    o envelope.lpp, envelope.lppm
    New argument 'theoryfun' can be used to provide the theoretical value
    of the summary function.

BUG FIXES

    o quadratcount.lpp
    Crashed if 'tess' was a tessellation of class 'lintess'.
    Fixed.

        CHANGES IN spatstat.linnet VERSION 3.4-1

OVERVIEW

    o Improved algorithm for integrating a function on a network.

    o Improvements to perspective plot of a function on a network.

    o Identify threads in a network.

    o lppm recognises the local coordinates 'seg' and 'tp'.

    o Minor improvements and bug fixes.

NEW FUNCTIONS

    o threads
    Identify threads in a network.

SIGNIFICANT USER-VISIBLE CHANGES

    o density.lpp
    Improved message output when verbose=TRUE.

    o integral.linfun
    New argument 'exact'. If 'exact=TRUE', a more accurate algorithm is used.

    o lppm
    The model formula may involve the local coordinates 'seg' and 'tp'
    ('seg' is segment number, 'tp' is relative position along the segment)

    o lurking.lppm, lurking.lpp
    Argument 'covariate' can be a function(x,y)
    or one of the strings "x", "y" or "tp".

    o persp.linim
    Improved behaviour close to vertices of the network.
    New argument 'extrapolate'.

    o persp.linim
    Argument 'col.base' can be a pixel image, allowing a colour image
    to be plotted on the horizontal plane at height zero.

    o persp.linim
    New argument 'zadjust' to adjust the vertical scale.

BUG FIXES

    o as.linnet.psp
    Crashed sometimes if the window of X was not convex.
    Fixed.

    o lurking.lppm
    Crashed if envelope=TRUE.
    Fixed.

    o plot.linnet
    Disobeyed 'do.plot=FALSE'.
    Fixed.

    o shortestpath
    This function was defined, but was not exported from spatstat.linnet.
    Fixed.

        CHANGES IN spatstat.linnet VERSION 3.4-0

OVERVIEW

    o Diagnostics for a fitted point process model on a linear network.

    o Quadrat counting and quadrat tests on a linear network.

    o More geometrical operations on linear network objects.

    o Pixelwise arithmetic on a linear network.

    o Internal improvements.

NEW FUNCTIONS

    o as.lintess
    Convert other kinds of data to a tessellation on a network.

    o diagnose.lppm
    Diagnostic plots for point process model on a linear network.

    o eem.lppm
    Stoyan-Grabarnik exponential energy weights diagnostic.

    o harmonise.linim
    Convert several images on a network to a common pixel grid.

    o linim.apply
    Apply a function pixelwise to a list of images on a network.

    o lurking.lpp
    Lurking variable plot for point pattern on a linear network.

    o lurking.lppm
    Lurking variable plot for point process model on a linear network.

    o flipxy.linnet
    Swap x and y coordinates of a linear network

    o flipxy.lpp
    Swap x and y coordinates of a point pattern on a linear network

    o parres.lppm
    Partial residual plot for point process model on a linear network.

    o qqplot.lppm
    Residual Q-Q plot for  point process model on a linear network.

    o quadratcount.lpp
    Method for quadrat counting on a linear network.

    o quadrat.test.lpp, quadrat.test.lppm
    Methods for quadrat test on a linear network.

    o residuals.lppm
    Residual measure for a point process model on a linear network.

SIGNIFICANT USER-VISIBLE CHANGES

    o as.linnet.psp
    New arguments 'chop' and 'fuse'.

    o bw.voronoi
    New argument 'metric' passed to 'densityVoronoi.lpp'.

    o densityVoronoi.lpp
    New argument 'metric' passed to 'lineardirichlet'.

    o integral.linim, integral.linfun
    Argument 'domain' can be a tessellation on a network (class 'lintess').

    o intersect.lintess
    Improved behaviour when X or Y is a 2D tessellation.

    o lineardirichlet
    New argument 'metric' allows the tessellation to be constructed
    using either the shortest-path distance or Euclidean distance.

    o linequad
    Argument 'Y' can be a linear network.

    o print.lintess
    Output improved.

BUG FIXES

    o intersect.lintess
    Result was incorrect if X was a tessellation and Y was a linear network.
    Fixed.

        CHANGES IN spatstat.linnet VERSION 3.3-2

OVERVIEW

    o Summary functions handle NA objects.

SIGNIFICANT USER-VISIBLE CHANGES

    o Summary functions
    (linearK, linearKinhom, linearKeuclid,
    linearKcross, linearKdot, linearKcross.inhom, linearKdot.inhom
    linearpcf, linearpcfinhom, linearpcfEuclid
    linearpcfcross, linearpcfdot, linearpcfcross.inhom, linearpcfdot.inhom
    linearmarkequal, linearmarkconnect, linearJinhom)
    If X is a missing point pattern, a missing object of class 'fv' is returned.

        CHANGES IN spatstat.linnet VERSION 3.3-1

OVERVIEW

    o Minor changes to documents to satisfy CRAN package checker.

        CHANGES IN spatstat.linnet VERSION 3.3-0

OVERVIEW

    o Extension of ROC curves.

    o Interactively identify segments of a network.

    o Interactively identify tiles of a tessellation on a network.

NEW FUNCTIONS

    o identify.linnet
    Interactively identify segments of a network.

    o identify.lintess
    Interactively identify tiles of a tessellation on a network.

    o as.linfun.linnet
    Create a function on a linear network which maps each network segment
    to a specified value.

SIGNIFICANT USER-VISIBLE CHANGES

    o roc.lpp
    New argument 'baseline' allows calculation of ROC relative to a baseline.

    o roc.lpp
    New argument 'weights' for numerical weights on the data points.

    o roc.lpp
    New argument 'method' determines the estimation method.
    New options include a kernel smoothing estimate and a monotone estimate.

    o roc.lpp
    New arguments 'CI', 'alpha' for calculating confidence intervals.

    o roc.lpp
    New argument 'subset' specifies a sub-region of the spatial domain
    in which the ROC should be calculated.

    o roc.lppm
    New argument 'baseline' allows calculation of ROC relative to a baseline.

    o roc.lppm
    New argument 'method' determines the estimation method.
    New options include a kernel smoothing estimate and a monotone estimate.

    o roc.lppm
    New arguments 'CI', 'alpha' for calculating confidence intervals.

    o roc.lppm
    New argument 'subset' specifies a sub-region of the spatial domain
    in which the ROC should be calculated.

    o roc.lppm
    New argument 'leaveoneout' specifies whether to use leave-one-out estimates
    of intensity at the data points.

    o chop.linnet
    Improved labels of tiles in the resulting tessellation.

        CHANGES IN spatstat.linnet VERSION 3.2-6

OVERVIEW

    o Bug fix in "[.lpp"

BUG FIXES

    o [.lpp
    Results with snip=TRUE were incorrect in some cases.
    Fixed.


To generate a diff of this commit:
cvs rdiff -u -r1.4 -r1.5 pkgsrc/geography/R-spatstat.linnet/Makefile
cvs rdiff -u -r1.6 -r1.7 pkgsrc/geography/R-spatstat.linnet/distinfo

Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.

Modified files:

Index: pkgsrc/geography/R-spatstat.linnet/Makefile
diff -u pkgsrc/geography/R-spatstat.linnet/Makefile:1.4 pkgsrc/geography/R-spatstat.linnet/Makefile:1.5
--- pkgsrc/geography/R-spatstat.linnet/Makefile:1.4     Sat Feb  8 09:25:44 2025
+++ pkgsrc/geography/R-spatstat.linnet/Makefile Fri Jun 12 14:04:37 2026
@@ -1,7 +1,7 @@
-# $NetBSD: Makefile,v 1.4 2025/02/08 09:25:44 mef Exp $
+# $NetBSD: Makefile,v 1.5 2026/06/12 14:04:37 mef Exp $
 
 R_PKGNAME=     spatstat.linnet
-R_PKGVER=      3.2-5
+R_PKGVER=      3.5-1
 CATEGORIES=    geography
 
 MAINTAINER=    pkgsrc-users%NetBSD.org@localhost

Index: pkgsrc/geography/R-spatstat.linnet/distinfo
diff -u pkgsrc/geography/R-spatstat.linnet/distinfo:1.6 pkgsrc/geography/R-spatstat.linnet/distinfo:1.7
--- pkgsrc/geography/R-spatstat.linnet/distinfo:1.6     Sat Feb  8 09:25:44 2025
+++ pkgsrc/geography/R-spatstat.linnet/distinfo Fri Jun 12 14:04:37 2026
@@ -1,5 +1,5 @@
-$NetBSD: distinfo,v 1.6 2025/02/08 09:25:44 mef Exp $
+$NetBSD: distinfo,v 1.7 2026/06/12 14:04:37 mef Exp $
 
-BLAKE2s (R/spatstat.linnet_3.2-5.tar.gz) = 90675f42b961bbc9cdf40e9448c72ff6d496b7d3781e1cb420e6e538c1990ffe
-SHA512 (R/spatstat.linnet_3.2-5.tar.gz) = 414d88c5ff17ae41d74cc8165d574741efaaf6fd6807e44983061ad896ffd6ab423f8c746c6cc28bd21aed6710c563f9bf0faf97ceef94fd207dc46c21c3ce0c
-Size (R/spatstat.linnet_3.2-5.tar.gz) = 285292 bytes
+BLAKE2s (R/spatstat.linnet_3.5-1.tar.gz) = 160a2d3f918be8e640c09e234acfb8a02ae70f24180a6498fcb3f044366c4710
+SHA512 (R/spatstat.linnet_3.5-1.tar.gz) = 6bb3aece9480dacacfac87956d1c7c4ea80709a21e9c4733c6bd242962d3196bbab94f9522961d97d1714b4ceee78aeaac21afac5367108bb82e74e8d4a8cdf0
+Size (R/spatstat.linnet_3.5-1.tar.gz) = 345042 bytes