spatstat

Package: spatstat
Version: 1.45-2
Nickname: Caretaker Mode
Date: 2016-05-09
Title: Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests
Author: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>,
Rolf Turner <r.turner@auckland.ac.nz>
and Ege Rubak <rubak@math.aau.dk>,
with substantial contributions of code by
Kasper Klitgaard Berthelsen;
Ottmar Cronie;
Ute Hahn;
Abdollah Jalilian;
Marie-Colette van Lieshout;
Tuomas Rajala;
Dominic Schuhmacher;
and
Rasmus Waagepetersen.
Additional contributions
by M. Adepeju;
Q.W. Ang;
S. Azaele;
M. Baddeley;
C. Beale;
M. Bell;
R. Bernhardt;
T. Bendtsen;
A. Bevan;
B. Biggerstaff;
A. Bilgrau;
L. Bischof;
C. Biscio;
R. Bivand;
J.M. Blanco Moreno;
F. Bonneu;
J. Burgos;
S. Byers;
Y.M. Chang;
J.B. Chen;
I. Chernayavsky;
Y.C. Chin;
B. Christensen;
J.-F. Coeurjolly;
R. Corria Ainslie;
M. de la Cruz;
P. Dalgaard;
M. D'Antuono;
S. Das;
P.J. Diggle;
P. Donnelly;
I. Dryden;
S. Eglen;
A. El-Gabbas;
B. Fandohan;
O. Flores;
E.D. Ford;
P. Forbes;
S. Frank;
J. Franklin;
N. Funwi-Gabga;
O. Garcia;
A. Gault;
J. Geldmann;
M. Genton;
S. Ghalandarayeshi;
J. Gilbey;
J. Goldstick;
P. Grabarnik;
C. Graf;
U. Hahn;
A. Hardegen;
M.B. Hansen;
M. Hazelton;
J. Heikkinen;
M. Hering;
M. Herrmann;
P. Hewson;
K. Hingee;
K. Hornik;
P. Hunziker;
J. Hywood;
R. Ihaka;
A. Jammalamadaka;
R. John-Chandran;
D. Johnson;
M. Khanmohammadi;
R. Klaver;
P. Kovesi;
M. Kuhn;
J. Laake;
F. Lavancier;
T. Lawrence;
R.A. Lamb;
J. Lee;
G.P. Leser;
H.T. Li;
G. Limitsios;
A. Lister;
B. Madin;
M. Maechler;
J. Marcus;
K. Marchikanti;
R. Mark;
J. Mateu;
P. McCullagh;
U. Mehlig;
S. Meyer;
X.C. Mi;
L. De Middeleer;
R.K. Milne;
E. Miranda;
J. Moller;
V. Morera Pujol;
E. Mudrak;
G.M. Nair;
N. Nava;
L.S. Nielsen;
F. Nunes;
J.R. Nyengaard;
J. Oehlschlaegel;
T. Onkelinx;
S. O'Riordan;
E. Parilov;
J. Picka;
N. Picard;
M. Porter;
S. Protsiv;
A. Raftery;
S. Rakshit;
B. Ramage;
P. Ramon;
X. Raynaud,
M. Reiter;
I. Renner;
T.O. Richardson;
B.D. Ripley;
E. Rosenbaum;
B. Rowlingson;
J. Rudokas;
J. Rudge;
C. Ryan;
F. Safavimanesh;
A. Sarkka;
C. Schank;
K. Schladitz;
S. Schutte;
B.T. Scott;
O. Semboli;
F. Semecurbe;
V. Shcherbakov;
G.C. Shen;
P. Shi;
H.-J. Ship;
I.-M. Sintorn;
Y. Song;
M. Spiess;
M. Stevenson;
K. Stucki;
M. Sumner;
P. Surovy;
B. Taylor;
T. Thorarinsdottir;
B. Turlach;
T. Tvedebrink;
K. Ummer;
M. Uppala;
A. van Burgel;
T. Verbeke;
M. Vihtakari;
A. Villers;
F. Vinatier;
S. Voss;
S. Wagner;
H. Wang;
H. Wendrock;
J. Wild;
C. Witthoft;
S. Wong;
M. Woringer;
M.E. Zamboni
and
A. Zeileis.
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Depends: R (>= 3.2.2), stats, graphics, grDevices, utils, methods,
nlme, rpart
Imports: mgcv, Matrix, deldir (>= 0.0-21), abind, tensor, polyclip (>=
1.5-0), goftest
Suggests: sm, maptools, gsl, locfit, spatial, rpanel, tkrplot,
RandomFields (>= 3.0.0)
Description: Comprehensive open-source toolbox for analysing Spatial Point Patterns. Focused mainly on two-dimensional point patterns, including multitype/marked points, in any spatial region. Also supports three-dimensional point patterns, space-time point patterns in any number of dimensions, point patterns on a linear network, and patterns of other geometrical objects. Supports spatial covariate data such as pixel images.
Contains over 2000 functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference.
Data types include point patterns, line segment patterns, spatial windows, pixel images, tessellations, and linear networks.
Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Diggle-Cressie-Loosmore-Ford, Dao-Genton) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov) are also supported.
Parametric models can be fitted to point pattern data using the functions ppm(), kppm(), slrm(), dppm() similar to glm(). Types of models include Poisson, Gibbs and Cox point processes, Neyman-Scott cluster processes, and determinantal point processes. Models may involve dependence on covariates, inter-point interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods.
A model can be fitted to a list of point patterns (replicated point pattern data) using the function mppm(). The model can include random effects and fixed effects depending on the experimental design, in addition to all the features listed above.
Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise(), AIC()). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots.
License: GPL (>= 2)
URL: http://www.spatstat.org
LazyData: true
NeedsCompilation: yes
ByteCompile: true
BugReports: https://github.com/spatstat/spatstat/issues
Packaged: 2016-05-09 04:35:04 UTC; adrian
Repository: CRAN
Date/Publication: 2016-05-09 10:08:26

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'spatstat' ...
** package 'spatstat' successfully unpacked and MD5 sums checked
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c Ediggatsti.c -o Ediggatsti.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c Ediggra.c -o Ediggra.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c Efiksel.c -o Efiksel.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c Egeyer.c -o Egeyer.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c Estrauss.c -o Estrauss.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c Kborder.c -o Kborder.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c Knone.c -o Knone.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c Krect.c -o Krect.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c Perfect.cc -o Perfect.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c areadiff.c -o areadiff.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c areaint.c -o areaint.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c areapair.c -o areapair.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c auctionbf.c -o auctionbf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c badgey.c -o badgey.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c bdrymask.c -o bdrymask.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c call3d.c -o call3d.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c close3pair.c -o close3pair.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c closepair.c -o closepair.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c connect.c -o connect.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c corrections.c -o corrections.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c denspt.c -o denspt.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c densptcross.c -o densptcross.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c dgs.c -o dgs.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c digber.c -o digber.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c diggra.c -o diggra.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c dinfty.c -o dinfty.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c discarea.c -o discarea.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c discs.c -o discs.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c dist2.c -o dist2.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c dist2dpath.c -o dist2dpath.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c distan3.c -o distan3.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c distances.c -o distances.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c distmapbin.c -o distmapbin.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c distseg.c -o distseg.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c dwpure.c -o dwpure.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c exactPdist.c -o exactPdist.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c exactdist.c -o exactdist.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c f3.c -o f3.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c fardist.c -o fardist.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c fastinterv.c -o fastinterv.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c fexitc.c -o fexitc.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c fiksel.c -o fiksel.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c g3.c -o g3.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c getcif.c -o getcif.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c geyer.c -o geyer.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c hardcore.c -o hardcore.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c idw.c -o idw.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c inxyp.c -o inxyp.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c k3.c -o k3.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c knndistance.c -o knndistance.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c knngrid.c -o knngrid.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c lennard.c -o lennard.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c linSnncross.c -o linSnncross.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c linalg.c -o linalg.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c lincrossdist.c -o lincrossdist.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c lineardisc.c -o lineardisc.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c linequad.c -o linequad.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c linknnd.c -o linknnd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c linnncross.c -o linnncross.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c linnndist.c -o linnndist.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c linpairdist.c -o linpairdist.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c linvdist.c -o linvdist.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c linvknndist.c -o linvknndist.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c lixel.c -o lixel.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c localpcf.c -o localpcf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c loccum.c -o loccum.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c lookup.c -o lookup.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c massdisthack.c -o massdisthack.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c methas.c -o methas.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c mhsnoop.c -o mhsnoop.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c minnnd.c -o minnnd.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c multihard.c -o multihard.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c nn3Ddist.c -o nn3Ddist.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c nnMDdist.c -o nnMDdist.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c nndistance.c -o nndistance.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c nngrid.c -o nngrid.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c pcf3.c -o pcf3.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c penttinen.c -o penttinen.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c poly2im.c -o poly2im.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c quasirandom.c -o quasirandom.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c rthin.c -o rthin.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c scan.c -o scan.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c seg2pix.c -o seg2pix.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c sftcr.c -o sftcr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c sparselinalg.c -o sparselinalg.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c sphefrac.c -o sphefrac.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c sphevol.c -o sphevol.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c straush.c -o straush.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c straushm.c -o straushm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c strauss.c -o strauss.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c straussm.c -o straussm.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c trigraf.c -o trigraf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c triplets.c -o triplets.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c utils.c -o utils.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c veegraf.c -o veegraf.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c whist.c -o whist.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c xyseg.c -o xyseg.o
g++ -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o spatstat.so Ediggatsti.o Ediggra.o Efiksel.o Egeyer.o Estrauss.o Kborder.o Knone.o Krect.o Perfect.o areadiff.o areaint.o areapair.o auctionbf.o badgey.o bdrymask.o call3d.o close3pair.o closepair.o connect.o corrections.o denspt.o densptcross.o dgs.o digber.o diggra.o dinfty.o discarea.o discs.o dist2.o dist2dpath.o distan3.o distances.o distmapbin.o distseg.o dwpure.o exactPdist.o exactdist.o f3.o fardist.o fastinterv.o fexitc.o fiksel.o g3.o getcif.o geyer.o hardcore.o idw.o inxyp.o k3.o knndistance.o knngrid.o lennard.o linSnncross.o linalg.o lincrossdist.o lineardisc.o linequad.o linknnd.o linnncross.o linnndist.o linpairdist.o linvdist.o linvknndist.o lixel.o localpcf.o loccum.o lookup.o massdisthack.o methas.o mhsnoop.o minnnd.o multihard.o nn3Ddist.o nnMDdist.o nndistance.o nngrid.o pcf3.o penttinen.o poly2im.o quasirandom.o rthin.o scan.o seg2pix.o sftcr.o sparselinalg.o sphefrac.o sphevol.o straush.o straushm.o strauss.o straussm.o trigraf.o triplets.o utils.o veegraf.o whist.o xyseg.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/spatstat/libs
** R
** data
*** moving datasets to lazyload DB
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'spatstat'
    finding HTML links ... done
    AreaInter                               html  
    BadGey                                  html  
    CDF                                     html  
    Concom                                  html  
    DiggleGatesStibbard                     html  
    DiggleGratton                           html  
    Emark                                   html  
    Extract.anylist                         html  
    Extract.fasp                            html  
    Extract.fv                              html  
    Extract.hyperframe                      html  
    Extract.im                              html  
    Extract.influence.ppm                   html  
    Extract.layered                         html  
    Extract.leverage.ppm                    html  
    Extract.linnet                          html  
    Extract.listof                          html  
    Extract.lpp                             html  
    Extract.msr                             html  
    Extract.owin                            html  
    Extract.ppp                             html  
    Extract.ppx                             html  
    Extract.psp                             html  
    Extract.quad                            html  
    Extract.solist                          html  
    Extract.splitppp                        html  
    Extract.tess                            html  
    F3est                                   html  
    Fest                                    html  
    Fiksel                                  html  
    Finhom                                  html  
    FmultiInhom                             html  
    Frame                                   html  
    G3est                                   html  
    Gcom                                    html  
    Gcross                                  html  
    Gdot                                    html  
    Gest                                    html  
    Geyer                                   html  
    Gfox                                    html  
    Ginhom                                  html  
    Gmulti                                  html  
    GmultiInhom                             html  
    Gres                                    html  
    Hardcore                                html  
    Hest                                    html  
    HierHard                                html  
    HierStrauss                             html  
    HierStraussHard                         html  
    Hybrid                                  html  
    Iest                                    html  
    Jcross                                  html  
    Jdot                                    html  
    Jest                                    html  
    Jinhom                                  html  
    Jmulti                                  html  
    K3est                                   html  
    Kcom                                    html  
    Kcross                                  html  
    Kcross.inhom                            html  
    Kdot                                    html  
    Kdot.inhom                              html  
    Kest                                    html  
    Kest.fft                                html  
    Kinhom                                  html  
    Kmark                                   html  
    Kmeasure                                html  
    Kmodel                                  html  
    Kmodel.dppm                             html  
    Kmodel.kppm                             html  
    Kmodel.ppm                              html  
    Kmulti                                  html  
    Kmulti.inhom                            html  
    Kovesi                                  html  
    Kres                                    html  
    Kscaled                                 html  
    Ksector                                 html  
    LambertW                                html  
    Lcross                                  html  
    Lcross.inhom                            html  
    Ldot                                    html  
    Ldot.inhom                              html  
    LennardJones                            html  
    Lest                                    html  
    Linhom                                  html  
    Math.im                                 html  
    Math.linim                              html  
    MinkowskiSum                            html  
    MultiHard                               html  
    MultiStrauss                            html  
    MultiStraussHard                        html  
    Ord                                     html  
    OrdThresh                               html  
    PPversion                               html  
    PairPiece                               html  
    Pairwise                                html  
    Penttinen                               html  
    Poisson                                 html  
    Replace.im                              html  
    SatPiece                                html  
    Saturated                               html  
    Smooth                                  html  
    Smooth.fv                               html  
    Smooth.msr                              html  
    Smooth.ppp                              html  
    Smoothfun.ppp                           html  
    Softcore                                html  
    Strauss                                 html  
    StraussHard                             html  
    Triplets                                html  
    Tstat                                   html  
    Window                                  html  
    WindowOnly                              html  
    adaptive.density                        html  
    add.texture                             html  
    addvar                                  html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/addvar.Rd:36: missing file link 'density.default'
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    affine                                  html  
    affine.im                               html  
    affine.linnet                           html  
    affine.lpp                              html  
    affine.owin                             html  
    affine.ppp                              html  
    affine.psp                              html  
    affine.tess                             html  
    allstats                                html  
    alltypes                                html  
    amacrine                                html  
    anemones                                html  
    angles.psp                              html  
    anova.lppm                              html  
    anova.mppm                              html  
    anova.ppm                               html  
    anova.slrm                              html  
    ants                                    html  
    anylist                                 html  
    append.psp                              html  
    applynbd                                html  
    area.owin                               html  
    areaGain                                html  
    areaLoss                                html  
    as.box3                                 html  
    as.boxx                                 html  
    as.data.frame.hyperframe                html  
    as.data.frame.im                        html  
    as.data.frame.owin                      html  
    as.data.frame.ppp                       html  
    as.data.frame.psp                       html  
    as.function.fv                          html  
    as.function.im                          html  
    as.function.tess                        html  
    as.fv                                   html  
    as.hyperframe                           html  
    as.hyperframe.ppx                       html  
    as.im                                   html  
    as.interact                             html  
    as.layered                              html  
    as.linfun                               html  
    as.linim                                html  
    as.linnet.linim                         html  
    as.linnet.psp                           html  
    as.lpp                                  html  
    as.mask                                 html  
    as.mask.psp                             html  
    as.matrix.im                            html  
    as.matrix.owin                          html  
    as.owin                                 html  
    as.polygonal                            html  
    as.ppm                                  html  
    as.ppp                                  html  
    as.psp                                  html  
    as.rectangle                            html  
    as.solist                               html  
    as.tess                                 html  
    auc                                     html  
    austates                                html  
    bdist.pixels                            html  
    bdist.points                            html  
    bdist.tiles                             html  
    bdspots                                 html  
    beachcolours                            html  
    beginner                                html  
    begins                                  html  
    bei                                     html  
    berman.test                             html  
    betacells                               html  
    bind.fv                                 html  
    blur                                    html  
    border                                  html  
    bounding.box.xy                         html  
    boundingbox                             html  
    box3                                    html  
    boxx                                    html  
    bramblecanes                            html  
    branchlabelfun                          html  
    bronzefilter                            html  
    bw.diggle                               html  
    bw.frac                                 html  
    bw.ppl                                  html  
    bw.relrisk                              html  
    bw.scott                                html  
    bw.smoothppp                            html  
    bw.stoyan                               html  
    by.im                                   html  
    by.ppp                                  html  
    cauchy.estK                             html  
    cauchy.estpcf                           html  
    cbind.hyperframe                        html  
    cdf.test                                html  
    cdf.test.mppm                           html  
    cells                                   html  
    centroid.owin                           html  
    chicago                                 html  
    chop.tess                               html  
    chorley                                 html  
    circdensity                             html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/circdensity.Rd:21: missing file link 'density.default'
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    circumradius                            html  
    clarkevans                              html  
    clarkevans.test                         html  
    clickbox                                html  
    clickdist                               html  
    clickjoin                               html  
    clickpoly                               html  
    clickppp                                html  
    clip.infline                            html  
    clmfires                                html  
    closepairs                              html  
    closepairs.pp3                          html  
    closing                                 html  
    clusterfield                            html  
    clusterfit                              html  
    clusterkernel                           html  
    clusterradius                           html  
    clusterset                              html  
    coef.mppm                               html  
    coef.ppm                                html  
    coef.slrm                               html  
    collapse.fv                             html  
    colourmap                               html  
    colourtools                             html  
    commonGrid                              html  
    compareFit                              html  
    compatible                              html  
    compatible.fasp                         html  
    compatible.fv                           html  
    compatible.im                           html  
    compileK                                html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/compileK.Rd:47: missing file link 'density.default'
    complement.owin                         html  
    concatxy                                html  
    connected                               html  
    connected.linnet                        html  
    connected.ppp                           html  
    contour.im                              html  
    contour.imlist                          html  
    convexhull                              html  
    convexhull.xy                           html  
    convexify                               html  
    convolve.im                             html  
    coords                                  html  
    copper                                  html  
    copyExampleFiles                        html  
    corners                                 html  
    covering                                html  
    crossdist                               html  
    crossdist.default                       html  
    crossdist.lpp                           html  
    crossdist.pp3                           html  
    crossdist.ppp                           html  
    crossdist.ppx                           html  
    crossdist.psp                           html  
    crossing.psp                            html  
    cut.im                                  html  
    cut.ppp                                 html  
    data.ppm                                html  
    dclf.progress                           html  
    dclf.sigtrace                           html  
    dclf.test                               html  
    default.dummy                           html  
    default.expand                          html  
    default.rmhcontrol                      html  
    delaunay                                html  
    delaunayDistance                        html  
    delaunayNetwork                         html  
    deletebranch                            html  
    deltametric                             html  
    demohyper                               html  
    demopat                                 html  
    dendrite                                html  
    density.lpp                             html  
    density.ppp                             html  
    density.psp                             html  
    density.splitppp                        html  
    deriv.fv                                html  
    detpointprocfamilyfun                   html  
    dfbetas.ppm                             html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/dfbetas.ppm.Rd:40: missing file link 'dfbetas'
    dg.envelope                             html  
    dg.progress                             html  
    dg.sigtrace                             html  
    dg.test                                 html  
    diagnose.ppm                            html  
    diameter                                html  
    diameter.box3                           html  
    diameter.boxx                           html  
    diameter.linnet                         html  
    diameter.owin                           html  
    dilated.areas                           html  
    dilation                                html  
    dim.detpointprocfamily                  html  
    dirichlet                               html  
    dirichletAreas                          html  
    dirichletVertices                       html  
    dirichletWeights                        html  
    disc                                    html  
    discpartarea                            html  
    discretise                              html  
    discs                                   html  
    distcdf                                 html  
    distfun                                 html  
    distfun.lpp                             html  
    distmap                                 html  
    distmap.owin                            html  
    distmap.ppp                             html  
    distmap.psp                             html  
    divide.linnet                           html  
    dkernel                                 html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/dkernel.Rd:45: missing file link 'density.default'
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    dmixpois                                html  
    domain                                  html  
    dppBessel                               html  
    dppCauchy                               html  
    dppGauss                                html  
    dppMatern                               html  
    dppPowerExp                             html  
    dppapproxkernel                         html  
    dppapproxpcf                            html  
    dppeigen                                html  
    dppkernel                               html  
    dppm                                    html  
    dppparbounds                            html  
    dppspecden                              html  
    dppspecdenrange                         html  
    dummify                                 html  
    dummy.ppm                               html  
    duplicated.ppp                          html  
    edge.Ripley                             html  
    edge.Trans                              html  
    edges                                   html  
    edges2triangles                         html  
    edges2vees                              html  
    edit.hyperframe                         html  
    edit.ppp                                html  
    eem                                     html  
    effectfun                               html  
    ellipse                                 html  
    emend                                   html  
    emend.ppm                               html  
    endpoints.psp                           html  
    envelope                                html  
    envelope.envelope                       html  
    envelope.lpp                            html  
    envelope.pp3                            html  
    eroded.areas                            html  
    erosion                                 html  
    erosionAny                              html  
    eval.fasp                               html  
    eval.fv                                 html  
    eval.im                                 html  
    eval.linim                              html  
    ewcdf                                   html  
    exactMPLEstrauss                        html  
    expand.owin                             html  
    fardist                                 html  
    fasp.object                             html  
    finpines                                html  
    fitin                                   html  
    fitted.lppm                             html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/fitted.lppm.Rd:36: missing file link 'fitted'
    fitted.mppm                             html  
    fitted.ppm                              html  
    fitted.slrm                             html  
    fixef.mppm                              html  
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    flipxy                                  html  
    flu                                     html  
    foo                                     html  
    formula.fv                              html  
    formula.ppm                             html  
    fourierbasis                            html  
    fryplot                                 html  
    funxy                                   html  
    fv                                      html  
    fv.object                               html  
    fvnames                                 html  
    ganglia                                 html  
    gauss.hermite                           html  
    gordon                                  html  
    gorillas                                html  
    gridcentres                             html  
    gridweights                             html  
    grow.boxx                               html  
    grow.rectangle                          html  
    hamster                                 html  
    harmonic                                html  
    harmonise                               html  
    harmonise.fv                            html  
    harmonise.im                            html  
    harmonise.owin                          html  
    heather                                 html  
    hextess                                 html  
    hierpair.family                         html  
    hist.im                                 html  
    hopskel                                 html  
    humberside                              html  
    hybrid.family                           html  
    hyperframe                              html  
    hyytiala                                html  
    identify.ppp                            html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/identify.ppp.Rd:21: missing file link 'identify.default'
    identify.psp                            html  
    idw                                     html  
    im                                      html  
    im.apply                                html  
    im.object                               html  
    imcov                                   html  
    improve.kppm                            html  
    incircle                                html  
    increment.fv                            html  
    infline                                 html  
    influence.ppm                           html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/influence.ppm.Rd:38: missing file link 'influence'
    inforder.family                         html  
    insertVertices                          html  
    inside.boxx                             html  
    inside.owin                             html  
    integral.im                             html  
    integral.linim                          html  
    integral.msr                            html  
    intensity                               html  
    intensity.dppm                          html  
    intensity.lpp                           html  
    intensity.ppm                           html  
    intensity.ppp                           html  
    intensity.ppx                           html  
    intensity.quadratcount                  html  
    interp.colourmap                        html  
    interp.im                               html  
    intersect.owin                          html  
    intersect.tess                          html  
    invoke.symbolmap                        html  
    iplot                                   html  
    ippm                                    html  
    is.convex                               html  
    is.dppm                                 html  
    is.empty                                html  
    is.hybrid                               html  
    is.im                                   html  
    is.lpp                                  html  
    is.marked                               html  
    is.marked.ppm                           html  
    is.marked.ppp                           html  
    is.multitype                            html  
    is.multitype.ppm                        html  
    is.multitype.ppp                        html  
    is.owin                                 html  
    is.ppm                                  html  
    is.ppp                                  html  
    is.rectangle                            html  
    is.stationary                           html  
    is.subset.owin                          html  
    istat                                   html  
    japanesepines                           html  
    kaplan.meier                            html  
    kernel.factor                           html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/kernel.factor.Rd:25: missing file link 'density.default'
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    kernel.moment                           html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/kernel.moment.Rd:34: missing file link 'density.default'
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    km.rs                                   html  
    kppm                                    html  
    lansing                                 html  
    laslett                                 html  
    latest.news                             html  
    layered                                 html  
    layerplotargs                           html  
    layout.boxes                            html  
    lengths.psp                             html  
    letterR                                 html  
    levelset                                html  
    leverage.ppm                            html  
    lgcp.estK                               html  
    lgcp.estpcf                             html  
    linearK                                 html  
    linearKcross                            html  
    linearKcross.inhom                      html  
    linearKdot                              html  
    linearKdot.inhom                        html  
    linearKinhom                            html  
    lineardisc                              html  
    linearmarkconnect                       html  
    linearmarkequal                         html  
    linearpcf                               html  
    linearpcfcross                          html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/linearpcfcross.Rd:42: missing file link 'density.default'
    linearpcfcross.inhom                    html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/linearpcfcross.inhom.Rd:58: missing file link 'density.default'
    linearpcfdot                            html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/linearpcfdot.Rd:38: missing file link 'density.default'
    linearpcfdot.inhom                      html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/linearpcfdot.inhom.Rd:54: missing file link 'density.default'
    linearpcfinhom                          html  
    linfun                                  html  
    linim                                   html  
    linnet                                  html  
    lintess                                 html  
    lixellate                               html  
    localK                                  html  
    localKinhom                             html  
    localpcf                                html  
    logLik.dppm                             html  
    logLik.kppm                             html  
    logLik.mppm                             html  
    logLik.ppm                              html  
    logLik.slrm                             html  
    lohboot                                 html  
    longleaf                                html  
    lpp                                     html  
    lppm                                    html  
    lurking                                 html  
    lut                                     html  
    markconnect                             html  
    markcorr                                html  
    markcrosscorr                           html  
    marks                                   html  
    marks.psp                               html  
    marks.tess                              html  
    markstat                                html  
    marktable                               html  
    markvario                               html  
    matchingdist                            html  
    matclust.estK                           html  
    matclust.estpcf                         html  
    maxnndist                               html  
    mean.im                                 html  
    mergeLevels                             html  
    methods.box3                            html  
    methods.boxx                            html  
    methods.dppm                            html  
    methods.fii                             html  
    methods.funxy                           html  
    methods.kppm                            html  
    methods.layered                         html  
    methods.linfun                          html  
    methods.linim                           html  
    methods.linnet                          html  
    methods.lpp                             html  
    methods.lppm                            html  
    methods.objsurf                         html  
    methods.pp3                             html  
    methods.ppx                             html  
    methods.rho2hat                         html  
    methods.rhohat                          html  
    methods.slrm                            html  
    methods.units                           html  
    methods.zclustermodel                   html  
    midpoints.psp                           html  
    mincontrast                             html  
    miplot                                  html  
    model.depends                           html  
    model.frame.ppm                         html  
    model.images                            html  
    model.matrix.ppm                        html  
    model.matrix.slrm                       html  
    moribund                                html  
    mppm                                    html  
    msr                                     html  
    mucosa                                  html  
    multiplicity.ppp                        html  
    murchison                               html  
    nbfires                                 html  
    nearest.raster.point                    html  
    nearestsegment                          html  
    nestsplit                               html  
    nnclean                                 html  
    nncorr                                  html  
    nncross                                 html  
    nncross.lpp                             html  
    nncross.pp3                             html  
    nndensity                               html  
    nndist                                  html  
    nndist.lpp                              html  
    nndist.pp3                              html  
    nndist.ppx                              html  
    nndist.psp                              html  
    nnfun                                   html  
    nnfun.lpp                               html  
    nnmap                                   html  
    nnmark                                  html  
    nnorient                                html  
    nnwhich                                 html  
    nnwhich.lpp                             html  
    nnwhich.pp3                             html  
    nnwhich.ppx                             html  
    nobjects                                html  
    npfun                                   html  
    npoints                                 html  
    nsegments                               html  
    nvertices                               html  
    nztrees                                 html  
    objsurf                                 html  
    opening                                 html  
    ord.family                              html  
    osteo                                   html  
    overlap.owin                            html  
    owin                                    html  
    owin.object                             html  
    padimage                                html  
    pairdist                                html  
    pairdist.default                        html  
    pairdist.lpp                            html  
    pairdist.pp3                            html  
    pairdist.ppp                            html  
    pairdist.ppx                            html  
    pairdist.psp                            html  
    pairorient                              html  
    pairs.im                                html  
    pairsat.family                          html  
    pairwise.family                         html  
    panel.contour                           html  
    paracou                                 html  
    parameters                              html  
    parres                                  html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/parres.Rd:40: missing file link 'density.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/parres.Rd:44: missing file link 'density.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/parres.Rd:47: missing file link 'density.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/parres.Rd:52: missing file link 'density.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/parres.Rd:142: missing file link 'density.default'
    pcf                                     html  
    pcf.fasp                                html  
    pcf.fv                                  html  
    pcf.ppp                                 html  
    pcf3est                                 html  
    pcfcross                                html  
    pcfcross.inhom                          html  
    pcfdot                                  html  
    pcfdot.inhom                            html  
    pcfinhom                                html  
    pcfmulti                                html  
    perimeter                               html  
    periodify                               html  
    persp.im                                html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/persp.im.Rd:74: missing file link 'heat.colors'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/persp.im.Rd:75: missing file link 'terrain.colors'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/persp.im.Rd:76: missing file link 'topo.colors'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/persp.im.Rd:77: missing file link 'cm.colors'
    perspPoints                             html  
    pixelcentres                            html  
    pixellate                               html  
    pixellate.owin                          html  
    pixellate.ppp                           html  
    pixellate.psp                           html  
    pixelquad                               html  
    plot.anylist                            html  
    plot.bermantest                         html  
    plot.cdftest                            html  
    plot.colourmap                          html  
    plot.dppm                               html  
    plot.envelope                           html  
    plot.fasp                               html  
    plot.fv                                 html  
    plot.hyperframe                         html  
    plot.im                                 html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.im.Rd:37: missing file link 'image.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.im.Rd:93: missing file link 'image.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.im.Rd:103: missing file link 'image.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.im.Rd:228: missing file link 'heat.colors'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.im.Rd:229: missing file link 'terrain.colors'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.im.Rd:230: missing file link 'topo.colors'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.im.Rd:231: missing file link 'cm.colors'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.im.Rd:240: missing file link 'image.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.im.Rd:243: missing file link 'image.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.im.Rd:302: missing file link 'image.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.im.Rd:330: missing file link 'image.default'
    plot.imlist                             html  
    plot.influence.ppm                      html  
    plot.kppm                               html  
    plot.laslett                            html  
    plot.layered                            html  
    plot.leverage.ppm                       html  
    plot.linim                              html  
    plot.linnet                             html  
    plot.listof                             html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.listof.Rd:96: missing file link 'print.listof'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.listof.Rd:192: missing file link 'print.listof'
    plot.lpp                                html  
    plot.lppm                               html  
    plot.mppm                               html  
    plot.msr                                html  
    plot.onearrow                           html  
    plot.owin                               html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.owin.Rd:161: missing file link 'X11.options'
    plot.plotppm                            html  
    plot.pp3                                html  
    plot.ppm                                html  
    plot.ppp                                html  
    plot.psp                                html  
    plot.quad                               html  
    plot.quadratcount                       html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.quadratcount.Rd:42: missing file link 'text.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.quadratcount.Rd:62: missing file link 'text.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.quadratcount.Rd:71: missing file link 'text.default'
    plot.quadrattest                        html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.quadrattest.Rd:25: missing file link 'text.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.quadrattest.Rd:38: missing file link 'text.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/plot.quadrattest.Rd:51: missing file link 'text.default'
    plot.rppm                               html  
    plot.scan.test                          html  
    plot.slrm                               html  
    plot.solist                             html  
    plot.splitppp                           html  
    plot.symbolmap                          html  
    plot.tess                               html  
    plot.textstring                         html  
    plot.texturemap                         html  
    plot.yardstick                          html  
    pointsOnLines                           html  
    ponderosa                               html  
    pool                                    html  
    pool.anylist                            html  
    pool.envelope                           html  
    pool.fasp                               html  
    pool.fv                                 html  
    pool.quadrattest                        html  
    pool.rat                                html  
    pp3                                     html  
    ppm                                     html  
    ppm.object                              html  
    ppm.ppp                                 html  
    ppmInfluence                            html  
    ppp                                     html  
    ppp.object                              html  
    pppdist                                 html  
    pppmatching                             html  
    pppmatching.object                      html  
    ppx                                     html  
    predict.dppm                            html  
    predict.kppm                            html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/predict.kppm.Rd:26: missing file link 'fitted'
    predict.lppm                            html  
    predict.mppm                            html  
    predict.ppm                             html  
    predict.rppm                            html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/predict.rppm.Rd:30: missing file link 'fitted'
    predict.slrm                            html  
    print.im                                html  
    print.owin                              html  
    print.ppm                               html  
    print.ppp                               html  
    print.psp                               html  
    print.quad                              html  
    profilepl                               html  
    progressreport                          html  
    project2segment                         html  
    project2set                             html  
    prune.rppm                              html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/prune.rppm.Rd:25: missing file link 'prune'
    pseudoR2                                html  
    psp                                     html  
    psp.object                              html  
    psst                                    html  
    psstA                                   html  
    psstG                                   html  
    pyramidal                               html  
    qqplot.ppm                              html  
    quad.object                             html  
    quad.ppm                                html  
    quadrat.test                            html  
    quadrat.test.mppm                       html  
    quadrat.test.splitppp                   html  
    quadratcount                            html  
    quadratresample                         html  
    quadrats                                html  
    quadscheme                              html  
    quadscheme.logi                         html  
    quantess                                html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/quantess.Rd:37: missing file link 'quantile.default'
    quantile.density                        html  
    quantile.ewcdf                          html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/quantile.ewcdf.Rd:32: missing file link 'quantile.default'
    quantile.im                             html  
    quasirandom                             html  
    rCauchy                                 html  
    rDGS                                    html  
    rDiggleGratton                          html  
    rGaussPoisson                           html  
    rHardcore                               html  
    rLGCP                                   html  
    rMatClust                               html  
    rMaternI                                html  
    rMaternII                               html  
    rMosaicField                            html  
    rMosaicSet                              html  
    rNeymanScott                            html  
    rPenttinen                              html  
    rPoissonCluster                         html  
    rQuasi                                  html  
    rSSI                                    html  
    rStrauss                                html  
    rStraussHard                            html  
    rThomas                                 html  
    rVarGamma                               html  
    ranef.mppm                              html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/ranef.mppm.Rd:23: missing file link 'ranef'
    range.fv                                html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/range.fv.Rd:34: missing file link 'max'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/range.fv.Rd:34: missing file link 'min'
    raster.x                                html  
    rat                                     html  
    rcell                                   html  
    rcellnumber                             html  
    rdpp                                    html  
    reach                                   html  
    reach.dppm                              html  
    reduced.sample                          html  
    redwood                                 html  
    redwoodfull                             html  
    reflect                                 html  
    relevel.im                              html  
    reload.or.compute                       html  
    relrisk                                 html  
    relrisk.ppm                             html  
    relrisk.ppp                             html  
    requireversion                          html  
    rescale                                 html  
    rescale.im                              html  
    rescale.owin                            html  
    rescale.ppp                             html  
    rescale.psp                             html  
    rescue.rectangle                        html  
    residuals.dppm                          html  
    residuals.kppm                          html  
    residuals.mppm                          html  
    residuals.ppm                           html  
    residualspaper                          html  
    rgbim                                   html  
    rho2hat                                 html  
    rhohat                                  html  
    ripras                                  html  
    rjitter                                 html  
    rknn                                    html  
    rlabel                                  html  
    rlinegrid                               html  
    rmh                                     html  
    rmh.default                             html  
    rmh.ppm                                 html  
    rmhcontrol                              html  
    rmhexpand                               html  
    rmhmodel                                html  
    rmhmodel.default                        html  
    rmhmodel.list                           html  
    rmhmodel.ppm                            html  
    rmhstart                                html  
    rmpoint                                 html  
    rmpoispp                                html  
    rnoise                                  html  
    roc                                     html  
    rose                                    html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/rose.Rd:117: missing file link 'density.default'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/rose.Rd:144: missing file link 'density.default'
    rotate                                  html  
    rotate.im                               html  
    rotate.owin                             html  
    rotate.ppp                              html  
    rotate.psp                              html  
    rotmean                                 html  
    round.ppp                               html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/round.ppp.Rd:30: missing file link 'round'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/round.ppp.Rd:48: missing file link 'round'
    rounding                                html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/rounding.Rd:40: missing file link 'round'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/rounding.Rd:48: missing file link 'round'
    rpoint                                  html  
    rpoisline                               html  
    rpoislinetess                           html  
    rpoislpp                                html  
    rpoispp                                 html  
    rpoispp3                                html  
    rpoisppOnLines                          html  
    rpoisppx                                html  
    rppm                                    html  
    rshift                                  html  
    rshift.ppp                              html  
    rshift.psp                              html  
    rshift.splitppp                         html  
    rstrat                                  html  
    rsyst                                   html  
    rtemper                                 html  
    rthin                                   html  
    run.simplepanel                         html  
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/run.simplepanel.Rd:62: missing file link 'dev.new'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/run.simplepanel.Rd:64: missing file link 'dev.off'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/run.simplepanel.Rd:72: missing file link 'dev.new'
Rd warning: /tmp/RtmpmU5LG9/R.INSTALL25ed5b2b7bcd/spatstat/man/run.simplepanel.Rd:75: missing file link 'dev.set'
    runifdisc                               html  
    runiflpp                                html  
    runifpoint                              html  
    runifpoint3                             html  
    runifpointOnLines                       html  
    runifpointx                             html  
    scalardilate                            html  
    scaletointerval                         html  
    scan.test                               html  
    scanLRTS                                html  
    scanpp                                  html  
    segregation.test                        html  
    selfcrossing.psp                        html  
    selfcut.psp                             html  
    sessionLibs                             html  
    setcov                                  html  
    shapley                                 html  
    sharpen                                 html  
    shift                                   html  
    shift.im                                html  
    shift.owin                              html  
    shift.ppp                               html  
    shift.psp                               html  
    sidelengths.owin                        html  
    simba                                   html  
    simdat                                  html  
    simplenet