CRAN Package Check Results for Package linkcomm

Last updated on 2017-06-22 17:47:47.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0-11 13.09 37.51 50.59 NOTE
r-devel-linux-x86_64-debian-gcc 1.0-11 14.65 37.45 52.10 NOTE
r-devel-linux-x86_64-fedora-clang 1.0-11 105.55 NOTE
r-devel-linux-x86_64-fedora-gcc 1.0-11 90.98 NOTE
r-devel-windows-ix86+x86_64 1.0-11 65.00 91.00 156.00 NOTE
r-patched-linux-x86_64 1.0-11 12.99 36.90 49.89 NOTE
r-patched-solaris-sparc 1.0-11 503.50 ERROR
r-patched-solaris-x86 1.0-11 112.40 ERROR
r-release-linux-x86_64 1.0-11 12.67 36.06 48.74 NOTE
r-release-windows-ix86+x86_64 1.0-11 63.00 134.00 197.00 NOTE
r-release-osx-x86_64 1.0-11 NOTE
r-oldrel-windows-ix86+x86_64 1.0-11 61.00 83.00 144.00 NOTE
r-oldrel-osx-x86_64 1.0-11 NOTE

Check Details

Version: 1.0-11
Check: R code for possible problems
Result: NOTE
    .COL: no visible global function definition for ‘is.leaf’
    corLinkcommCentrality: no visible global function definition for ‘lm’
    corLinkcommCentrality: no visible global function definition for
     ‘abline’
    corLinkcommCentrality: no visible global function definition for ‘cor’
    cutDendrogramAt: no visible global function definition for
     ‘as.dendrogram’
    cutDendrogramAt: no visible global function definition for
     ‘colorRampPalette’
    cutDendrogramAt: no visible global function definition for ‘dendrapply’
    cutDendrogramAt: no visible global function definition for ‘abline’
    cutDendrogramAt: no visible global function definition for ‘mtext’
    getClusterRelatedness: no visible global function definition for
     ‘as.dist’
    getClusterRelatedness: no visible global function definition for
     ‘hclust’
    getLinkCommunities: no visible global function definition for ‘as.dist’
    getLinkCommunities: no visible global function definition for ‘hclust’
    getLinkCommunities: no visible global function definition for ‘par’
    getLinkCommunities: no visible global function definition for ‘abline’
    getLinkCommunities: no visible global function definition for ‘lines’
    layout.spencer.circle: no visible global function definition for
     ‘runif’
    meta.communities: no visible global function definition for ‘hclust’
    meta.communities: no visible global function definition for ‘as.dist’
    plotLinkCommDend: no visible global function definition for
     ‘as.dendrogram’
    plotLinkCommDend: no visible global function definition for
     ‘colorRampPalette’
    plotLinkCommDend: no visible global function definition for
     ‘dendrapply’
    plotLinkCommDend: no visible global function definition for ‘plot’
    plotLinkCommDend: no visible global function definition for ‘abline’
    plotLinkCommDend: no visible global function definition for ‘mtext’
    plotLinkCommGraph: no visible global function definition for
     ‘colorRampPalette’
    plotLinkCommGraph: no visible global function definition for ‘dev.hold’
    plotLinkCommGraph: no visible global function definition for
     ‘dev.flush’
    plotLinkCommGraph: no visible global function definition for ‘par’
    plotLinkCommGraph: no visible global function definition for ‘plot’
    plotLinkCommGraph: no visible global function definition for ‘polygon’
    plotLinkCommGraph: no visible global function definition for ‘text’
    plotLinkCommGraph: no visible global function definition for ‘points’
    plotLinkCommMembers: no visible global function definition for
     ‘colorRampPalette’
    plotLinkCommSumm: no visible global function definition for ‘par’
    plotLinkCommSumm: no visible global function definition for
     ‘as.dendrogram’
    plotLinkCommSumm: no visible global function definition for
     ‘colorRampPalette’
    plotLinkCommSumm: no visible global function definition for
     ‘dendrapply’
    plotLinkCommSumm: no visible global function definition for ‘plot.new’
    plotLinkCommSumm: no visible global function definition for ‘plot’
    plotLinkCommSummComm: no visible global function definition for
     ‘colorRampPalette’
    plotLinkCommSummComm: no visible global function definition for
     ‘barplot’
    plotLinkCommSummComm: no visible global function definition for
     ‘abline’
    plotOCGraph: no visible global function definition for
     ‘colorRampPalette’
    plotOCGraph: no visible global function definition for ‘dev.hold’
    plotOCGraph: no visible global function definition for ‘dev.flush’
    plotOCGraph: no visible global function definition for ‘plot’
    plotOCGraph: no visible global function definition for ‘polygon’
    plotOCGraph: no visible global function definition for ‘text’
    Undefined global functions or variables:
     abline as.dendrogram as.dist barplot colorRampPalette cor dendrapply
     dev.flush dev.hold hclust is.leaf lines lm mtext par plot plot.new
     points polygon runif text
    Consider adding
     importFrom("grDevices", "colorRampPalette", "dev.flush", "dev.hold")
     importFrom("graphics", "abline", "barplot", "lines", "mtext", "par",
     "plot", "plot.new", "points", "polygon", "text")
     importFrom("stats", "as.dendrogram", "as.dist", "cor", "dendrapply",
     "hclust", "is.leaf", "lm", "runif")
    to your NAMESPACE file.
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-sparc, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.0-11
Check: compiled code
Result: NOTE
    File ‘linkcomm/libs/linkcomm.so’:
     Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
    
    It is good practice to register native routines and to disable symbol
    search.
    
    See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
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-patched-linux-x86_64, r-release-linux-x86_64

Version: 1.0-11
Check: examples
Result: ERROR
    Running examples in ‘linkcomm-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: getLinkCommunities
    > ### Title: Extract Link Communities from a Network
    > ### Aliases: getLinkCommunities
    >
    > ### ** Examples
    >
    > ## Generate graph and extract link communities.
    > g <- swiss[,3:4]
    > lc <- getLinkCommunities(g)
    
     Found and removed 4 loop(s)
     Found and removed 2 duplicate edge(s)
    
     Hierarchical clustering of edges...
    
     Maximum partition density = 0.2601626
     Finishing up...1/4... 12%
     Finishing up...1/4... 25%
     Finishing up...1/4... 37%
     Finishing up...1/4... 50%
     Finishing up...1/4... 62%
     Finishing up...1/4... 75%
     Finishing up...1/4... 87%
     Finishing up...1/4... 100%
     Finishing up...2/4... 12%
     Finishing up...2/4... 25%
     Finishing up...2/4... 37%
     Finishing up...2/4... 50%
     Finishing up...2/4... 62%
     Finishing up...2/4... 75%
     Finishing up...2/4... 87%
     Finishing up...2/4... 100%
     Finishing up...3/4... 12%
     Finishing up...3/4... 25%
     Finishing up...3/4... 37%
     Finishing up...3/4... 50%
     Finishing up...3/4... 62%
     Finishing up...3/4... 75%
     Finishing up...3/4... 87%
     Finishing up...3/4... 100%
     Plotting...
     Colouring dendrogram... 1%
     Colouring dendrogram... 2%
     Colouring dendrogram... 3%
     Colouring dendrogram... 4%
     Colouring dendrogram... 6%
     Colouring dendrogram... 7%
     Colouring dendrogram... 8%
     Colouring dendrogram... 9%
     Colouring dendrogram... 11%
     Colouring dendrogram... 12%
     Colouring dendrogram... 13%
     Colouring dendrogram... 14%
     Colouring dendrogram... 16%
     Colouring dendrogram... 17%
     Colouring dendrogram... 18%
     Colouring dendrogram... 19%
     Colouring dendrogram... 20%
     Colouring dendrogram... 22%
     Colouring dendrogram... 23%
     Colouring dendrogram... 24%
     Colouring dendrogram... 25%
     Colouring dendrogram... 27%
     Colouring dendrogram... 28%
     Colouring dendrogram... 29%
     Colouring dendrogram... 30%
     Colouring dendrogram... 32%
     Colouring dendrogram... 33%
     Colouring dendrogram... 34%
     Colouring dendrogram... 35%
     Colouring dendrogram... 37%
     Colouring dendrogram... 38%
     Colouring dendrogram... 39%
     Colouring dendrogram... 40%
     Colouring dendrogram... 41%
     Colouring dendrogram... 43%
     Colouring dendrogram... 44%
     Colouring dendrogram... 45%
     Colouring dendrogram... 46%
     Colouring dendrogram... 48%
     Colouring dendrogram... 49%
     Colouring dendrogram... 50%
     Colouring dendrogram... 51%
     Colouring dendrogram... 53%
     Colouring dendrogram... 54%
     Colouring dendrogram... 55%
     Colouring dendrogram... 56%
     Colouring dendrogram... 58%
     Colouring dendrogram... 59%
     Colouring dendrogram... 60%
     Colouring dendrogram... 61%
     Colouring dendrogram... 62%
     Colouring dendrogram... 64%
     Colouring dendrogram... 65%
     Colouring dendrogram... 66%
     Colouring dendrogram... 67%
     Colouring dendrogram... 69%
     Colouring dendrogram... 70%
     Colouring dendrogram... 71%
     Colouring dendrogram... 72%
     Colouring dendrogram... 74%
     Colouring dendrogram... 75%
     Colouring dendrogram... 76%
     Colouring dendrogram... 77%
     Colouring dendrogram... 79%
     Colouring dendrogram... 80%
     Colouring dendrogram... 81%
     Colouring dendrogram... 82%
     Colouring dendrogram... 83%
     Colouring dendrogram... 85%
     Colouring dendrogram... 86%
     Colouring dendrogram... 87%
     Colouring dendrogram... 88%
     Colouring dendrogram... 90%
     Colouring dendrogram... 91%
     Colouring dendrogram... 92%
     Colouring dendrogram... 93%
     Colouring dendrogram... 95%
     Colouring dendrogram... 96%
     Colouring dendrogram... 97%
     Colouring dendrogram... 98%
     Colouring dendrogram... 100%
    >
    > ## Extract communities by writing a temporary file to disk.
    > lc <- getLinkCommunities(g, edglim = 10)
    
     Found and removed 4 loop(s)
     Found and removed 2 duplicate edge(s)
    
     *** caught segfault ***
    address 18, cause 'memory not mapped'
    
    Traceback:
     1: getLinkCommunities(g, edglim = 10)
    An irrecoverable exception occurred. R is aborting now ...
Flavor: r-patched-solaris-sparc

Version: 1.0-11
Check: examples
Result: ERROR
    Running examples in ‘linkcomm-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: getLinkCommunities
    > ### Title: Extract Link Communities from a Network
    > ### Aliases: getLinkCommunities
    >
    > ### ** Examples
    >
    > ## Generate graph and extract link communities.
    > g <- swiss[,3:4]
    > lc <- getLinkCommunities(g)
    
     Checking for loops and duplicate edges... 0.000%
     Checking for loops and duplicate edges... 2.174%
     Checking for loops and duplicate edges... 4.348%
     Checking for loops and duplicate edges... 6.522%
     Checking for loops and duplicate edges... 8.696%
     Checking for loops and duplicate edges... 10.870%
     Checking for loops and duplicate edges... 13.043%
     Checking for loops and duplicate edges... 15.217%
     Checking for loops and duplicate edges... 17.391%
     Checking for loops and duplicate edges... 19.565%
     Checking for loops and duplicate edges... 21.739%
     Checking for loops and duplicate edges... 23.913%
     Checking for loops and duplicate edges... 26.087%
     Checking for loops and duplicate edges... 28.261%
     Checking for loops and duplicate edges... 30.435%
     Checking for loops and duplicate edges... 32.609%
     Checking for loops and duplicate edges... 34.783%
     Checking for loops and duplicate edges... 36.957%
     Checking for loops and duplicate edges... 39.130%
     Checking for loops and duplicate edges... 41.304%
     Checking for loops and duplicate edges... 43.478%
     Checking for loops and duplicate edges... 45.652%
     Checking for loops and duplicate edges... 47.826%
     Checking for loops and duplicate edges... 50.000%
     Checking for loops and duplicate edges... 52.174%
     Checking for loops and duplicate edges... 54.348%
     Checking for loops and duplicate edges... 56.522%
     Checking for loops and duplicate edges... 58.696%
     Checking for loops and duplicate edges... 60.870%
     Checking for loops and duplicate edges... 63.043%
     Checking for loops and duplicate edges... 65.217%
     Checking for loops and duplicate edges... 67.391%
     Checking for loops and duplicate edges... 69.565%
     Checking for loops and duplicate edges... 71.739%
     Checking for loops and duplicate edges... 73.913%
     Checking for loops and duplicate edges... 76.087%
     Checking for loops and duplicate edges... 78.261%
     Checking for loops and duplicate edges... 80.435%
     Checking for loops and duplicate edges... 82.609%
     Checking for loops and duplicate edges... 84.783%
     Checking for loops and duplicate edges... 86.957%
     Checking for loops and duplicate edges... 89.130%
     Checking for loops and duplicate edges... 91.304%
     Checking for loops and duplicate edges... 93.478%
     Checking for loops and duplicate edges... 95.652%
     Checking for loops and duplicate edges... 97.826%
     Checking for loops and duplicate edges... 100.000%
     Found and removed 4 loop(s)
     Found and removed 2 duplicate edge(s)
    
     Calculating edge similarities for 41 edges... 0.00%
     Calculating edge similarities for 41 edges... 2.56%
     Calculating edge similarities for 41 edges... 5.13%
     Calculating edge similarities for 41 edges... 7.69%
     Calculating edge similarities for 41 edges... 10.26%
     Calculating edge similarities for 41 edges... 12.82%
     Calculating edge similarities for 41 edges... 15.38%
     Calculating edge similarities for 41 edges... 17.95%
     Calculating edge similarities for 41 edges... 20.51%
     Calculating edge similarities for 41 edges... 23.08%
     Calculating edge similarities for 41 edges... 25.64%
     Calculating edge similarities for 41 edges... 28.21%
     Calculating edge similarities for 41 edges... 30.77%
     Calculating edge similarities for 41 edges... 33.33%
     Calculating edge similarities for 41 edges... 35.90%
     Calculating edge similarities for 41 edges... 38.46%
     Calculating edge similarities for 41 edges... 41.03%
     Calculating edge similarities for 41 edges... 43.59%
     Calculating edge similarities for 41 edges... 46.15%
     Calculating edge similarities for 41 edges... 48.72%
     Calculating edge similarities for 41 edges... 51.28%
     Calculating edge similarities for 41 edges... 53.85%
     Calculating edge similarities for 41 edges... 56.41%
     Calculating edge similarities for 41 edges... 58.97%
     Calculating edge similarities for 41 edges... 61.54%
     Calculating edge similarities for 41 edges... 64.10%
     Calculating edge similarities for 41 edges... 66.67%
     Calculating edge similarities for 41 edges... 69.23%
     Calculating edge similarities for 41 edges... 71.79%
     Calculating edge similarities for 41 edges... 74.36%
     Calculating edge similarities for 41 edges... 76.92%
     Calculating edge similarities for 41 edges... 79.49%
     Calculating edge similarities for 41 edges... 82.05%
     Calculating edge similarities for 41 edges... 84.62%
     Calculating edge similarities for 41 edges... 87.18%
     Calculating edge similarities for 41 edges... 89.74%
     Calculating edge similarities for 41 edges... 92.31%
     Calculating edge similarities for 41 edges... 94.87%
     Calculating edge similarities for 41 edges... 97.44%
     Calculating edge similarities for 41 edges... 100.00%
     Hierarchical clustering of edges...
    
     Calculating link densities... 0.00%
     Calculating link densities... 2.56%
     Calculating link densities... 5.13%
     Calculating link densities... 7.69%
     Calculating link densities... 10.26%
     Calculating link densities... 12.82%
     Calculating link densities... 15.38%
     Calculating link densities... 17.95%
     Calculating link densities... 20.51%
     Calculating link densities... 23.08%
     Calculating link densities... 25.64%
     Calculating link densities... 28.21%
     Calculating link densities... 30.77%
     Calculating link densities... 33.33%
     Calculating link densities... 35.90%
     Calculating link densities... 38.46%
     Calculating link densities... 41.03%
     Calculating link densities... 43.59%
     Calculating link densities... 46.15%
     Calculating link densities... 48.72%
     Calculating link densities... 51.28%
     Calculating link densities... 53.85%
     Calculating link densities... 56.41%
     Calculating link densities... 58.97%
     Calculating link densities... 61.54%
     Calculating link densities... 64.10%
     Calculating link densities... 66.67%
     Calculating link densities... 69.23%
     Calculating link densities... 71.79%
     Calculating link densities... 74.36%
     Calculating link densities... 76.92%
     Calculating link densities... 79.49%
     Calculating link densities... 82.05%
     Calculating link densities... 84.62%
     Calculating link densities... 87.18%
     Calculating link densities... 89.74%
     Calculating link densities... 92.31%
     Calculating link densities... 94.87%
     Calculating link densities... 97.44%
     Calculating link densities... 100.00%
     Maximum partition density = 0.2601626
     Finishing up...1/4... 12%
     Finishing up...1/4... 25%
     Finishing up...1/4... 37%
     Finishing up...1/4... 50%
     Finishing up...1/4... 62%
     Finishing up...1/4... 75%
     Finishing up...1/4... 87%
     Finishing up...1/4... 100%
     Finishing up...2/4... 12%
     Finishing up...2/4... 25%
     Finishing up...2/4... 37%
     Finishing up...2/4... 50%
     Finishing up...2/4... 62%
     Finishing up...2/4... 75%
     Finishing up...2/4... 87%
     Finishing up...2/4... 100%
     Finishing up...3/4... 12%
     Finishing up...3/4... 25%
     Finishing up...3/4... 37%
     Finishing up...3/4... 50%
     Finishing up...3/4... 62%
     Finishing up...3/4... 75%
     Finishing up...3/4... 87%
     Finishing up...3/4... 100%
    
     Finishing up...4/4... 0.00%
     Finishing up...4/4... 4.76%
     Finishing up...4/4... 9.52%
     Finishing up...4/4... 14.29%
     Finishing up...4/4... 19.05%
     Finishing up...4/4... 23.81%
     Finishing up...4/4... 28.57%
     Finishing up...4/4... 33.33%
     Finishing up...4/4... 38.10%
     Finishing up...4/4... 42.86%
     Finishing up...4/4... 47.62%
     Finishing up...4/4... 52.38%
     Finishing up...4/4... 57.14%
     Finishing up...4/4... 61.90%
     Finishing up...4/4... 66.67%
     Finishing up...4/4... 71.43%
     Finishing up...4/4... 76.19%
     Finishing up...4/4... 80.95%
     Finishing up...4/4... 85.71%
     Finishing up...4/4... 90.48%
     Finishing up...4/4... 95.24%
     Finishing up...4/4... 100.00%
     Plotting...
     Colouring dendrogram... 1%
     Colouring dendrogram... 2%
     Colouring dendrogram... 3%
     Colouring dendrogram... 4%
     Colouring dendrogram... 6%
     Colouring dendrogram... 7%
     Colouring dendrogram... 8%
     Colouring dendrogram... 9%
     Colouring dendrogram... 11%
     Colouring dendrogram... 12%
     Colouring dendrogram... 13%
     Colouring dendrogram... 14%
     Colouring dendrogram... 16%
     Colouring dendrogram... 17%
     Colouring dendrogram... 18%
     Colouring dendrogram... 19%
     Colouring dendrogram... 20%
     Colouring dendrogram... 22%
     Colouring dendrogram... 23%
     Colouring dendrogram... 24%
     Colouring dendrogram... 25%
     Colouring dendrogram... 27%
     Colouring dendrogram... 28%
     Colouring dendrogram... 29%
     Colouring dendrogram... 30%
     Colouring dendrogram... 32%
     Colouring dendrogram... 33%
     Colouring dendrogram... 34%
     Colouring dendrogram... 35%
     Colouring dendrogram... 37%
     Colouring dendrogram... 38%
     Colouring dendrogram... 39%
     Colouring dendrogram... 40%
     Colouring dendrogram... 41%
     Colouring dendrogram... 43%
     Colouring dendrogram... 44%
     Colouring dendrogram... 45%
     Colouring dendrogram... 46%
     Colouring dendrogram... 48%
     Colouring dendrogram... 49%
     Colouring dendrogram... 50%
     Colouring dendrogram... 51%
     Colouring dendrogram... 53%
     Colouring dendrogram... 54%
     Colouring dendrogram... 55%
     Colouring dendrogram... 56%
     Colouring dendrogram... 58%
     Colouring dendrogram... 59%
     Colouring dendrogram... 60%
     Colouring dendrogram... 61%
     Colouring dendrogram... 62%
     Colouring dendrogram... 64%
     Colouring dendrogram... 65%
     Colouring dendrogram... 66%
     Colouring dendrogram... 67%
     Colouring dendrogram... 69%
     Colouring dendrogram... 70%
     Colouring dendrogram... 71%
     Colouring dendrogram... 72%
     Colouring dendrogram... 74%
     Colouring dendrogram... 75%
     Colouring dendrogram... 76%
     Colouring dendrogram... 77%
     Colouring dendrogram... 79%
     Colouring dendrogram... 80%
     Colouring dendrogram... 81%
     Colouring dendrogram... 82%
     Colouring dendrogram... 83%
     Colouring dendrogram... 85%
     Colouring dendrogram... 86%
     Colouring dendrogram... 87%
     Colouring dendrogram... 88%
     Colouring dendrogram... 90%
     Colouring dendrogram... 91%
     Colouring dendrogram... 92%
     Colouring dendrogram... 93%
     Colouring dendrogram... 95%
     Colouring dendrogram... 96%
     Colouring dendrogram... 97%
     Colouring dendrogram... 98%
     Colouring dendrogram... 100%
    >
    > ## Extract communities by writing a temporary file to disk.
    > lc <- getLinkCommunities(g, edglim = 10)
    
     Checking for loops and duplicate edges... 0.000%
     Checking for loops and duplicate edges... 2.174%
     Checking for loops and duplicate edges... 4.348%
     Checking for loops and duplicate edges... 6.522%
     Checking for loops and duplicate edges... 8.696%
     Checking for loops and duplicate edges... 10.870%
     Checking for loops and duplicate edges... 13.043%
     Checking for loops and duplicate edges... 15.217%
     Checking for loops and duplicate edges... 17.391%
     Checking for loops and duplicate edges... 19.565%
     Checking for loops and duplicate edges... 21.739%
     Checking for loops and duplicate edges... 23.913%
     Checking for loops and duplicate edges... 26.087%
     Checking for loops and duplicate edges... 28.261%
     Checking for loops and duplicate edges... 30.435%
     Checking for loops and duplicate edges... 32.609%
     Checking for loops and duplicate edges... 34.783%
     Checking for loops and duplicate edges... 36.957%
     Checking for loops and duplicate edges... 39.130%
     Checking for loops and duplicate edges... 41.304%
     Checking for loops and duplicate edges... 43.478%
     Checking for loops and duplicate edges... 45.652%
     Checking for loops and duplicate edges... 47.826%
     Checking for loops and duplicate edges... 50.000%
     Checking for loops and duplicate edges... 52.174%
     Checking for loops and duplicate edges... 54.348%
     Checking for loops and duplicate edges... 56.522%
     Checking for loops and duplicate edges... 58.696%
     Checking for loops and duplicate edges... 60.870%
     Checking for loops and duplicate edges... 63.043%
     Checking for loops and duplicate edges... 65.217%
     Checking for loops and duplicate edges... 67.391%
     Checking for loops and duplicate edges... 69.565%
     Checking for loops and duplicate edges... 71.739%
     Checking for loops and duplicate edges... 73.913%
     Checking for loops and duplicate edges... 76.087%
     Checking for loops and duplicate edges... 78.261%
     Checking for loops and duplicate edges... 80.435%
     Checking for loops and duplicate edges... 82.609%
     Checking for loops and duplicate edges... 84.783%
     Checking for loops and duplicate edges... 86.957%
     Checking for loops and duplicate edges... 89.130%
     Checking for loops and duplicate edges... 91.304%
     Checking for loops and duplicate edges... 93.478%
     Checking for loops and duplicate edges... 95.652%
     Checking for loops and duplicate edges... 97.826%
     Checking for loops and duplicate edges... 100.000%
     Found and removed 4 loop(s)
     Found and removed 2 duplicate edge(s)
    
     Calculating edge similarities for 41 edges... 0.00%
     Calculating edge similarities for 41 edges... 2.56%
     Calculating edge similarities for 41 edges... 5.13%
     Calculating edge similarities for 41 edges... 7.69%
     Calculating edge similarities for 41 edges... 10.26%
     Calculating edge similarities for 41 edges... 12.82%
     Calculating edge similarities for 41 edges... 15.38%
     Calculating edge similarities for 41 edges... 17.95%
     Calculating edge similarities for 41 edges... 20.51%
     Calculating edge similarities for 41 edges... 23.08%
     Calculating edge similarities for 41 edges... 25.64%
     Calculating edge similarities for 41 edges... 28.21%
     Calculating edge similarities for 41 edges... 30.77%
     Calculating edge similarities for 41 edges... 33.33%
     Calculating edge similarities for 41 edges... 35.90%
     Calculating edge similarities for 41 edges... 38.46%
     Calculating edge similarities for 41 edges... 41.03%
     Calculating edge similarities for 41 edges... 43.59%
     Calculating edge similarities for 41 edges... 46.15%
     Calculating edge similarities for 41 edges... 48.72%
     Calculating edge similarities for 41 edges... 51.28%
     Calculating edge similarities for 41 edges... 53.85%
     Calculating edge similarities for 41 edges... 56.41%
     Calculating edge similarities for 41 edges... 58.97%
     Calculating edge similarities for 41 edges... 61.54%
     Calculating edge similarities for 41 edges... 64.10%
     Calculating edge similarities for 41 edges... 66.67%
     Calculating edge similarities for 41 edges... 69.23%
     Calculating edge similarities for 41 edges... 71.79%
     Calculating edge similarities for 41 edges... 74.36%
     Calculating edge similarities for 41 edges... 76.92%
     Calculating edge similarities for 41 edges... 79.49%
     Calculating edge similarities for 41 edges... 82.05%
     Calculating edge similarities for 41 edges... 84.62%
     Calculating edge similarities for 41 edges... 87.18%
     Calculating edge similarities for 41 edges... 89.74%
     Calculating edge similarities for 41 edges... 92.31%
     Calculating edge similarities for 41 edges... 94.87%
     Calculating edge similarities for 41 edges... 97.44%
     Calculating edge similarities for 41 edges... 100.00%
    
     Hierarchical clustering of edges... 0.00%
Flavor: r-patched-solaris-x86

Version: 1.0-11
Check: re-building of vignette outputs
Result: NOTE
    Error in re-building vignettes:
     ...
    For a step-by-step guide to using linkcomm functions:
     > vignette(topic = "linkcomm", package = "linkcomm")
    To run an interactive demo:
     > demo(topic = "linkcomm", package = "linkcomm")
    To cite, see:
     > citation("linkcomm")
    NOTE: To use linkcomm, you require read and write permissions in the current directory (see: help("getwd"), help("setwd"))
    
    The "ward" method has been renamed to "ward.D"; note new "ward.D2"
    Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
     Running 'texi2dvi' on 'linkcomm.tex' failed.
    LaTeX errors:
    ! LaTeX Error: File `sectsty.sty' not found.
    
    Type X to quit or <RETURN> to proceed,
    or enter new name. (Default extension: sty)
    
    ! Emergency stop.
    <read *>
    
    l.11 \usepackage
     {caption}^^M
    ! ==> Fatal error occurred, no output PDF file produced!
    Calls: buildVignettes -> texi2pdf -> texi2dvi
    Execution halted
Flavor: r-release-osx-x86_64