CRAN Package Check Results for Package phylocurve

Last updated on 2020-06-23 13:49:05 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.1.1 62.41 130.75 193.16 ERROR
r-devel-linux-x86_64-debian-gcc 2.1.1 51.45 98.70 150.15 ERROR
r-devel-linux-x86_64-fedora-clang 2.1.1 263.17 ERROR
r-devel-linux-x86_64-fedora-gcc 2.1.1 246.19 ERROR
r-devel-windows-ix86+x86_64 2.1.1 105.00 193.00 298.00 ERROR
r-patched-linux-x86_64 2.1.1 52.46 127.03 179.49 ERROR
r-patched-solaris-x86 2.1.1 306.60 ERROR
r-release-linux-x86_64 2.1.1 54.60 132.35 186.95 ERROR
r-release-osx-x86_64 2.1.1 OK
r-release-windows-ix86+x86_64 2.1.1 115.00 201.00 316.00 ERROR
r-oldrel-osx-x86_64 2.1.1 WARN
r-oldrel-windows-ix86+x86_64 2.1.1 121.00 199.00 320.00 ERROR

Check Details

Version: 2.1.1
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: possible error in 'plotGMPhyloMorphoSpace(phy, ': unused arguments (phy, A, ancStates = FALSE)
    See '/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/phylocurve.Rcheck/00install.out' for details.
    Information on the location(s) of code generating the 'Note's can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to 'yes'.
Flavor: r-devel-linux-x86_64-debian-clang

Version: 2.1.1
Check: R code for possible problems
Result: NOTE
    fast.geomorph.physignal: possible error in plotGMPhyloMorphoSpace(phy,
     A, ancStates = FALSE): unused arguments (phy, A, ancStates = FALSE)
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 2.1.1
Check: examples
Result: ERROR
    Running examples in 'phylocurve-Ex.R' failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
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     |======================================================================| 100%
    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.44
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.253
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-devel-linux-x86_64-debian-clang

Version: 2.1.1
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: possible error in 'plotGMPhyloMorphoSpace(phy, ': unused arguments (phy, A, ancStates = FALSE)
    See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/phylocurve.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-devel-linux-x86_64-debian-gcc

Version: 2.1.1
Check: examples
Result: ERROR
    Running examples in ‘phylocurve-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
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     |======================================================================| 100%
    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.44
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.239
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc

Version: 2.1.1
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: possible error in 'plotGMPhyloMorphoSpace(phy, ': unused arguments (phy, A, ancStates = FALSE)
    See ‘/data/gannet/ripley/R/packages/tests-clang/phylocurve.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 2.1.1
Check: examples
Result: ERROR
    Running examples in ‘phylocurve-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
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     |
     |======================================================================| 100%
    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.44
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.254
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 2.1.1
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: possible error in 'plotGMPhyloMorphoSpace(phy, ': unused arguments (phy, A, ancStates = FALSE)
    See ‘/data/gannet/ripley/R/packages/tests-devel/phylocurve.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 2.1.1
Check: examples
Result: ERROR
    Running examples in ‘phylocurve-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
     | | 0%
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     |============== | 20%
     |
     |============================ | 40%
     |
     |======================================================================| 100%
    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.44
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.269
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 2.1.1
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: possible error in 'plotGMPhyloMorphoSpace(phy, ': unused arguments (phy, A, ancStates = FALSE)
    See 'd:/Rcompile/CRANpkg/local/4.1/phylocurve.Rcheck/00install.out' for details.
    Information on the location(s) of code generating the 'Note's can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to 'yes'.
Flavor: r-devel-windows-ix86+x86_64

Version: 2.1.1
Check: running examples for arch ‘i386’
Result: ERROR
    Running examples in 'phylocurve-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
     | | 0%
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     |============================ | 40%
     |
     |======================================================================| 100%
    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.44
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.256
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-devel-windows-ix86+x86_64

Version: 2.1.1
Check: running examples for arch ‘x64’
Result: ERROR
    Running examples in 'phylocurve-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
     | | 0%
     |
     |============== | 20%
     |
     |============================ | 40%
     |
     |======================================================================| 100%
    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.44
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.235
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-devel-windows-ix86+x86_64

Version: 2.1.1
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: possible error in 'plotGMPhyloMorphoSpace(phy, ': unused arguments (phy, A, ancStates = FALSE)
    See ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/phylocurve.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-patched-linux-x86_64

Version: 2.1.1
Check: examples
Result: ERROR
    Running examples in ‘phylocurve-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
     | | 0%
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     |============== | 20%
     |
     |============================ | 40%
     |
     |======================================================================| 100%
    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.44
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.278
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-patched-linux-x86_64

Version: 2.1.1
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: possible error in 'plotGMPhyloMorphoSpace(phy, ': unused arguments (phy, A, ancStates = FALSE)
    See ‘/home/ripley/R/packages/tests32/phylocurve.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-patched-solaris-x86

Version: 2.1.1
Check: examples
Result: ERROR
    Running examples in ‘phylocurve-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
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     |============================ | 40%
     |
     |======================================================================| 100%
    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.44
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.28
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-patched-solaris-x86

Version: 2.1.1
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: possible error in 'plotGMPhyloMorphoSpace(phy, ': unused arguments (phy, A, ancStates = FALSE)
    See ‘/home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/phylocurve.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-release-linux-x86_64

Version: 2.1.1
Check: examples
Result: ERROR
    Running examples in ‘phylocurve-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
     | | 0%
     |
     |============== | 20%
     |
     |============================ | 40%
     |
     |======================================================================| 100%
    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.44
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.236
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-release-linux-x86_64

Version: 2.1.1
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: possible error in 'plotGMPhyloMorphoSpace(phy, ': unused arguments (phy, A, ancStates = FALSE)
    See 'd:/Rcompile/CRANpkg/local/4.0/phylocurve.Rcheck/00install.out' for details.
    Information on the location(s) of code generating the 'Note's can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to 'yes'.
Flavor: r-release-windows-ix86+x86_64

Version: 2.1.1
Check: running examples for arch ‘i386’
Result: ERROR
    Running examples in 'phylocurve-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
     | | 0%
     |
     |============== | 20%
     |
     |============================ | 40%
     |
     |======================================================================| 100%
    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.44
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.238
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-release-windows-ix86+x86_64

Version: 2.1.1
Check: running examples for arch ‘x64’
Result: ERROR
    Running examples in 'phylocurve-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
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    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.44
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.27
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-release-windows-ix86+x86_64

Version: 2.1.1
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Warning: 'rgl.init' failed, running with 'rgl.useNULL = TRUE'.
Flavor: r-oldrel-osx-x86_64

Version: 2.1.1
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: possible error in 'plotGMPhyloMorphoSpace(phy, ': unused arguments (phy, A, ancStates = FALSE)
    See 'd:/Rcompile/CRANpkg/local/3.6/phylocurve.Rcheck/00install.out' for details.
    Information on the location(s) of code generating the 'Note's can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to 'yes'.
Flavor: r-oldrel-windows-ix86+x86_64

Version: 2.1.1
Check: running examples for arch ‘i386’
Result: ERROR
    Running examples in 'phylocurve-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
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     |============================ | 40%
     |
     |======================================================================| 100%
    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.4
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.27
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-oldrel-windows-ix86+x86_64

Version: 2.1.1
Check: running examples for arch ‘x64’
Result: ERROR
    Running examples in 'phylocurve-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: fast.geomorph.compare.evol.rates
    > ### Title: Fast covariance-based implementations of distance-based methods
    > ### Aliases: fast.geomorph.compare.evol.rates
    >
    > ### ** Examples
    >
    > ### NOTE: this example is identical
    > ### to the example code for the
    > ### analogous geomorph function
    > ### for direct comparisons with
    > ### 'fast.geomorph' phylocurve functions
    >
    > require(geomorph)
    Loading required package: geomorph
    Loading required package: RRPP
    Loading required package: rgl
    > data(plethspecies)
    > Y.gpa<-gpagen(plethspecies$land) #GPA-alignment
    
     |
     | | 0%
     |
     |============== | 20%
     |
     |============================ | 40%
     |
     |======================================================================| 100%
    >
    > gp.end<-factor(c(0,0,1,0,0,1,1,0,0)) #endangered species vs. rest
    > names(gp.end)<-plethspecies$phy$tip
    >
    > #Calculate rates of shape
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$coords,gp=gp.end,iter=49)
    
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    Call:
    
    
    Observed Rate Ratio: 1.84
    
    P-value: 0.44
    
    Effect Size: 0.23
    
    Based on 50 random permutations
    
    The rate for group 0 is 1.79641730182344e-06
    
    The rate for group 1 is 3.30041132572866e-06 > fast.geomorph.compare.evol.rates(plethspecies$phy,Y.gpa$coords,gp=gp.end)
    $sigma.d
    [1] 2.297749e-06
    
    $sigmad.all
     0 1
    1.796417e-06 3.300411e-06
    
    $sigmad.ratio
    [1] 1.837219
    
    $pvalue
    [1] 0.25
    
    >
    > #Calculate rates of size
    > compare.evol.rates(phy=plethspecies$phy,Y.gpa$Csize,gp=gp.end,iter=49)
    Error in if (N != dim(x)[1]) { : argument is of length zero
    Calls: compare.evol.rates
    Execution halted
Flavor: r-oldrel-windows-ix86+x86_64