CRAN Package Check Results for Package prabclus

Last updated on 2021-09-23 12:58:03 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.3-2 9.44 92.26 101.70 OK
r-devel-linux-x86_64-debian-gcc 2.3-2 6.45 68.01 74.46 OK
r-devel-linux-x86_64-fedora-clang 2.3-2 125.91 OK
r-devel-linux-x86_64-fedora-gcc 2.3-2 115.76 OK
r-devel-windows-x86_64 2.3-2 10.00 85.00 95.00 OK
r-devel-windows-x86_64-gcc10-UCRT 2.3-2 ERROR
r-patched-linux-x86_64 2.3-2 11.79 89.02 100.81 OK
r-patched-solaris-x86 2.3-2 160.80 OK
r-release-linux-x86_64 2.3-2 8.74 87.71 96.45 OK
r-release-macos-arm64 2.3-2 OK
r-release-macos-x86_64 2.3-2 OK
r-release-windows-ix86+x86_64 2.3-2 14.00 84.00 98.00 OK
r-oldrel-macos-x86_64 2.3-2 OK
r-oldrel-windows-ix86+x86_64 2.3-2 31.00 84.00 115.00 OK

Check Details

Version: 2.3-2
Check: package dependencies
Result: NOTE
    Packages suggested but not available for checking: 'spdep', 'spatialreg'
Flavor: r-devel-windows-x86_64-gcc10-UCRT

Version: 2.3-2
Check: Rd cross-references
Result: NOTE
    Package unavailable to check Rd xrefs: 'spdep'
Flavor: r-devel-windows-x86_64-gcc10-UCRT

Version: 2.3-2
Check: tests
Result: ERROR
     Running 'donttestexamples.R'
     Running 'prabclustests.R'
    Running the tests in 'tests/prabclustests.R' failed.
    Complete output:
     > library(prabclus)
     Loading required package: MASS
     Loading required package: mclust
     Package 'mclust' version 5.4.7
     Type 'citation("mclust")' for citing this R package in publications.
     > options(digits=4)
     >
     > data(kykladspecreg)
     > data(nb)
     > set.seed(1234)
     > x <- prabinit(prabmatrix=kykladspecreg, neighborhood=nb)
     >
     > p1 <- prabtest(x, times=3, pd=0.35, ignore.richness=TRUE)
     Simulation run 1 statistics value= 0.5811
     Simulation run 2 statistics value= 0.4761
     Simulation run 3 statistics value= 0.5022
     Data value: 0.408
     > p2 <- prabtest(x, times=3, pd=0.35, teststat="lcomponent")
     Simulation run 1 statistics value= 9
     Simulation run 2 statistics value= 19
     Simulation run 3 statistics value= 43
     Data value: 8
     > p3 <- prabtest(x, times=3, pd=0.35, teststat="isovertice")
     Simulation run 1 statistics value= 9
     Simulation run 2 statistics value= 9
     Simulation run 3 statistics value= 23
     Data value: 15
     > p4 <- prabtest(x, times=3, pd=0.35, teststat="nn", sf.sim=TRUE)
     Simulation run 1 statistics value= 0.3598
     Simulation run 2 statistics value= 0.3635
     Simulation run 3 statistics value= 0.3441
     Data value: 0.3192
     > p5 <- prabtest(x, times=3, pd=0.35, teststat="inclusions")
     Simulation run 1 statistics value= 470
     Simulation run 2 statistics value= 547
     Simulation run 3 statistics value= 365
     Data value: 602
     > summary(p1)
     * Parametric bootstrap test for presence-absence data *
    
     Test statistics: distratio , Tuning constant= 0.25
     Distance: kulczynski
     Simulation runs: 3
     Disjunction parameter for presence-absence pattern: 0.35
     Rows (regions) richness has been ignored by the null model.
     Statistics value for original data: 0.408
     Mean for null data: 0.5198 , range: 0.4761 0.5811
     p= 0.25
     > summary(p2)
     * Parametric bootstrap test for presence-absence data *
    
     Test statistics: lcomponent , Tuning constant= 60
     Distance: kulczynski
     Simulation runs: 3
     Disjunction parameter for presence-absence pattern: 0.35
     Statistics value for original data: 8
     Mean for null data: 23.67 , range: 9 43
     p= 0.25
     > summary(p3)
     * Parametric bootstrap test for presence-absence data *
    
     Test statistics: isovertice , Tuning constant= 80
     Distance: kulczynski
     Simulation runs: 3
     Disjunction parameter for presence-absence pattern: 0.35
     Statistics value for original data: 15
     Mean for null data: 13.67 , range: 9 23
     p= 1
     > summary(p4)
     * Parametric bootstrap test for presence-absence data *
    
     Test statistics: nn , Tuning constant= 4
     Distance: kulczynski
     Simulation runs: 3
     Disjunction parameter for presence-absence pattern: 0.35
     Statistics value for original data: 0.3192
     Mean for null data: 0.3558 , range: 0.3441 0.3635
     p= 0.25
     > summary(p5)
     * Parametric bootstrap test for presence-absence data *
    
     Test statistics: inclusions , Tuning constant= NA
     Distance: kulczynski
     Simulation runs: 3
     Disjunction parameter for presence-absence pattern: 0.35
     Statistics value for original data: 602
     Mean for null data: 460.7 , range: 365 547
     p= 0.25
     >
     > data(veronica)
     > vnb <- coord2dist(coordmatrix=veronica.coord[1:50,], cut=20,
     + file.format="decimal2",neighbors=TRUE)
     > vei <- prabinit(prabmatrix=veronica[1:50,],
     + neighborhood=vnb$nblist,nbbetweenregions=FALSE,
     + distance="jaccard")
     > print(vei)
     Presence-absence matrix object with
     50 species and 583 regions,
     including species/individuals neighborhoods and
     between-species distance matrix of type jaccard .
     >
     > library(spdep)
     Error in library(spdep) : there is no package called 'spdep'
     Execution halted
Flavor: r-devel-windows-x86_64-gcc10-UCRT

Version: 2.3-2
Check: PDF version of manual
Result: WARN
    LaTeX errors when creating PDF version.
    This typically indicates Rd problems.
Flavor: r-devel-windows-x86_64-gcc10-UCRT

Version: 2.3-2
Check: PDF version of manual without hyperrefs or index
Result: ERROR
    Re-running with no redirection of stdout/stderr.
Flavor: r-devel-windows-x86_64-gcc10-UCRT