• using R Under development (unstable) (2017-06-24 r72853)
• using platform: x86_64-pc-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘igraph/DESCRIPTION’ ... OK
• this is package ‘igraph’ version ‘1.0.1’
• checking package namespace information ... OK
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking for executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘igraph’ can be installed ... WARNING
  Found the following significant warnings:
    Warning: ‘tarray[0]’ is used uninitialized in this function [-Wuninitialized]
     # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
  See https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-gcc/igraph-00install.html for details.
• checking package directory ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level files ... OK
• checking for left-over files ... OK
• checking index information ... OK
• checking package subdirectories ... OK
• checking R files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... OK
• checking whether the package can be loaded with stated dependencies ... OK
• checking whether the package can be unloaded cleanly ... OK
• checking whether the namespace can be loaded with stated dependencies ... OK
• checking whether the namespace can be unloaded cleanly ... OK
• checking loading without being on the library search path ... OK
• checking use of S3 registration ... OK
• checking dependencies in R code ... OK
• checking S3 generic/method consistency ... WARNING
  median:
    function(x, na.rm, ...)
  median.sir:
    function(x, na.rm)
  
  See section ‘Generic functions and methods’ in the ‘Writing R
  Extensions’ manual.
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... NOTE
  .igraph.progress.txt: no visible global function definition for
    ‘txtProgressBar’
  .igraph.progress.txt: no visible global function definition for
    ‘setTxtProgressBar’
  .igraph.shape.circle.plot: no visible global function definition for
    ‘symbols’
  .igraph.shape.crectangle.plot: no visible global function definition
    for ‘symbols’
  .igraph.shape.csquare.plot: no visible global function definition for
    ‘symbols’
  .igraph.shape.pie.plot: no visible global function definition for
    ‘na.omit’
  .igraph.shape.raster.plot: no visible global function definition for
    ‘rasterImage’
  .igraph.shape.rectangle.plot: no visible global function definition for
    ‘symbols’
  .igraph.shape.sphere.plot : <anonymous>: no visible global function
    definition for ‘col2rgb’
  .igraph.shape.sphere.plot : <anonymous>: no visible global function
    definition for ‘as.raster’
  .igraph.shape.sphere.plot: no visible global function definition for
    ‘rasterImage’
  .igraph.shape.square.plot: no visible global function definition for
    ‘symbols’
  .igraph.shape.vrectangle.plot: no visible global function definition
    for ‘symbols’
  .print.edges.compressed.limit : fun: no visible global function
    definition for ‘capture.output’
  .print.graph.attributes: no visible global function definition for
    ‘capture.output’
  .tkigraph.about: no visible global function definition for
    ‘packageDescription’
  .tkigraph.by.hand: no visible global function definition for ‘edit’
  .tkigraph.calculate.clusters : plot.command: no visible global function
    definition for ‘hist’
  .tkigraph.calculate.clusters : plot.command: no visible global function
    definition for ‘dev.new’
  .tkigraph.calculate.clusters : plot.command: no visible global function
    definition for ‘plot’
  .tkigraph.degree : plot.command: no visible global function definition
    for ‘hist’
  .tkigraph.degree : plot.command: no visible global function definition
    for ‘dev.new’
  .tkigraph.degree : plot.command: no visible global function definition
    for ‘plot’
  .tkigraph.degree.dist: no visible global function definition for
    ‘dev.new’
  .tkigraph.degree.dist: no visible global function definition for ‘hist’
  .tkigraph.degree.dist: no visible global function definition for ‘plot’
  .tkigraph.degree.dist: no visible global function definition for
    ‘lines’
  .tkigraph.degree.dist: no visible global function definition for ‘coef’
  .tkigraph.degree.dist: no visible global function definition for
    ‘legend’
  .tkigraph.degree.dist: no visible global function definition for ‘vcov’
  .tkigraph.export.adjacency: no visible global function definition for
    ‘write.table’
  .tkigraph.export.edgelist: no visible global function definition for
    ‘write.table’
  .tkigraph.help : <anonymous>: no visible global function definition for
    ‘browseURL’
  .tkigraph.help.external: no visible global function definition for
    ‘browseURL’
  .tkigraph.import.adjacency: no visible global function definition for
    ‘read.table’
  .tkigraph.import.edgelist: no visible global function definition for
    ‘read.table’
  .tkigraph.motifs.draw: no visible global function definition for
    ‘dev.new’
  .tkigraph.motifs.draw: no visible global function definition for
    ‘layout’
  .tkigraph.motifs.draw: no visible global function definition for
    ‘layout.show’
  .tkigraph.motifs.draw: no visible global function definition for ‘par’
  .tkigraph.motifs.draw: no visible global function definition for ‘plot’
  .tkigraph.motifs.draw: no visible global function definition for ‘text’
  .tkigraph.motifs.find: no visible global function definition for
    ‘dev.new’
  .tkigraph.motifs.find: no visible global function definition for
    ‘barplot’
  .tkigraph.motifs.find: no visible global function definition for
    ‘layout’
  .tkigraph.motifs.find: no visible global function definition for
    ‘layout.show’
  .tkigraph.motifs.find: no visible global function definition for ‘par’
  .tkigraph.motifs.find: no visible global function definition for ‘plot’
  .tkigraph.motifs.find: no visible global function definition for ‘text’
  .tkigraph.plot : fun: no visible global function definition for
    ‘dev.new’
  .tkigraph.plot.comp: no visible global function definition for
    ‘rainbow’
  .tkigraph.showData : <anonymous>: no visible global function definition
    for ‘write.table’
  .tkigraph.spinglass.community.dialog : plot.communities: no visible
    global function definition for ‘rainbow’
  .tkplot.convert.color: no visible global function definition for
    ‘palette’
  asPhylo.communities: no visible global function definition for
    ‘reorder’
  asPhylo.igraphHRG: no visible global function definition for ‘reorder’
  as_phylo.communities: no visible global function definition for
    ‘reorder’
  as_phylo.igraphHRG: no visible global function definition for ‘reorder’
  cluster.distribution: no visible global function definition for ‘hist’
  component_distribution: no visible global function definition for
    ‘hist’
  degree.distribution: no visible global function definition for ‘hist’
  degree_distribution: no visible global function definition for ‘hist’
  dendPlotDendrogram: no visible global function definition for ‘plot’
  dendPlotHclust: no visible global function definition for ‘palette’
  dendPlotHclust: no visible global function definition for ‘plot’
  dendPlotHclust: no visible global function definition for ‘rect.hclust’
  dendPlotPhylo: no visible global function definition for ‘palette’
  dendPlotPhylo: no visible global function definition for ‘plot’
  deprecated: no visible global function definition for ‘packageName’
  ends: no visible global function definition for ‘na.omit’
  gclust.app: no visible global function definition for ‘coef’
  gclust.rsvt: no visible global function definition for ‘coef’
  hrgPlotDendrogram: no visible global function definition for ‘plot’
  hrgPlotHclust: no visible global function definition for ‘rainbow’
  hrgPlotHclust: no visible global function definition for ‘plot’
  hrgPlotHclust: no visible global function definition for ‘rect.hclust’
  hrgPlotPhylo: no visible global function definition for ‘rainbow’
  hrgPlotPhylo: no visible global function definition for ‘plot’
  igraph.Arrows: no visible global function definition for ‘par’
  igraph.Arrows: no visible global function definition for ‘xyinch’
  igraph.Arrows: no visible global function definition for ‘segments’
  igraph.Arrows: no visible global function definition for ‘xspline’
  igraph.Arrows: no visible global function definition for ‘lines’
  igraph.Arrows: no visible global function definition for ‘polygon’
  igraph.polygon: no visible global function definition for ‘xspline’
  indent_print: no visible global function definition for
    ‘capture.output’
  layout.drl: no visible global function definition for ‘runif’
  layout.sugiyama: no visible global function definition for ‘head’
  layout_with_drl: no visible global function definition for ‘runif’
  layout_with_sugiyama: no visible global function definition for ‘head’
  mypie: no visible global function definition for ‘par’
  mypie: no visible global function definition for ‘polygon’
  nexus.get: no visible global function definition for ‘URLencode’
  nexus.info: no visible global function definition for ‘URLencode’
  nexus.list: no visible global function definition for ‘URLencode’
  nexus.search: no visible global function definition for ‘URLencode’
  nexus_get: no visible global function definition for ‘URLencode’
  nexus_info: no visible global function definition for ‘URLencode’
  nexus_list: no visible global function definition for ‘URLencode’
  nexus_search: no visible global function definition for ‘URLencode’
  plot.cohesiveBlocks: no visible global function definition for
    ‘rainbow’
  plot.cohesiveBlocks: no visible global function definition for ‘plot’
  plot.communities: no visible global function definition for ‘plot’
  plot.igraph: no visible global function definition for ‘rainbow’
  plot.igraph: no visible global function definition for ‘plot’
  plot.igraph : plot.bezier: no visible global function definition for
    ‘polygon’
  plot.igraph : loop: no visible global function definition for ‘text’
  plot.igraph: no visible global function definition for ‘text’
  plot.igraph: no visible global function definition for ‘par’
  plot.igraph : <anonymous>: no visible global function definition for
    ‘text’
  plot.sir: no visible global function definition for ‘plot’
  plot.sir : <anonymous>: no visible global function definition for
    ‘lines’
  plot.sir: no visible global function definition for ‘lines’
  plotHierarchy: no visible global function definition for ‘plot’
  plot_hierarchy: no visible global function definition for ‘plot’
  r_pal: no visible global function definition for ‘palette’
  scan_temp_norm: no visible global function definition for ‘sd’
  scan_vertex_norm: no visible binding for global variable ‘sd’
  time_bins.sir: no visible global function definition for ‘IQR’
  Undefined global functions or variables:
    IQR URLencode as.raster barplot browseURL capture.output coef col2rgb
    dev.new edit head hist layout layout.show legend lines na.omit
    packageDescription packageName palette par plot polygon rainbow
    rasterImage read.table rect.hclust reorder runif sd segments
    setTxtProgressBar symbols text txtProgressBar vcov write.table
    xspline xyinch
  Consider adding
    importFrom("grDevices", "as.raster", "col2rgb", "dev.new", "palette",
               "rainbow")
    importFrom("graphics", "barplot", "hist", "layout", "layout.show",
               "legend", "lines", "par", "plot", "polygon", "rasterImage",
               "segments", "symbols", "text", "xspline", "xyinch")
    importFrom("stats", "IQR", "coef", "na.omit", "rect.hclust", "reorder",
               "runif", "sd", "vcov")
    importFrom("utils", "URLencode", "browseURL", "capture.output", "edit",
               "head", "packageDescription", "packageName", "read.table",
               "setTxtProgressBar", "txtProgressBar", "write.table")
  to your NAMESPACE file.
• checking Rd files ... OK
• checking Rd metadata ... OK
• checking Rd line widths ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking compilation flags in Makevars ... OK
• checking for GNU extensions in Makefiles ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking compiled code ... NOTE
  File ‘igraph/libs/igraph.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.
• checking examples ... [18s/18s] OK
• checking PDF version of manual ... OK
• DONE

Status: 2 WARNINGs, 2 NOTEs