• using R Under development (unstable) (2012-08-11 r60235)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘anchors/DESCRIPTION’ ... OK
• this is package ‘anchors’ version ‘3.0-7’
• 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 ... NOTE
  Found the following hidden files and directories:
  inst/doc.tmp/.Renviron
  These were most likely included in error. See section ‘Package
  structure’ in the ‘Writing R Extensions’ manual.
• checking whether package ‘anchors’ can be installed ... OK
• checking installed package size ... OK
• checking package directory ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level 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 for unstated dependencies in R code ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... NOTE
  File ‘anchors/R/load.first.R’:
  .onAttach calls:
  cat("\n## anchors (Version ", ver, ", Build Date: ", builddate, ")\n", sep = "")
  cat("## See http://wand.stanford.edu/anchors for additional documentation and support.\n\n", sep = "")
  
  Package startup functions should use ‘packageStartupMessage’ to
  generate messages.
  See section ‘Good practice’ in ?.onAttach.
  
  .onAttach: warning in packageDescription("anchors", lib = mylib):
  partial argument match of 'lib' to 'lib.loc'
  anchors.order.calc: warning in rank(data$z0[i, ], ties = "min"):
  partial argument match of 'ties' to 'ties.method'
  chopit: warning in anchors.chopit.fit(data = adata, parm = parm, count
  = count, opt = options): partial argument match of 'opt' to 'options'
• checking Rd files ... OK
• checking Rd metadata ... 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 contents of ‘data’ directory ... OK
• checking data for non-ASCII characters ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking for portable compilation flags in Makevars ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking compiled code ... OK
• checking sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... NOTE
  The following files should probably not be installed:
  ‘Makefile’, ‘anchors.tex’, ‘apsr2001.bst’
  
  Consider the use of a .Rinstignore file: see ‘Writing R Extensions’,
  or move the vignette sources from ‘inst/doc’ to ‘vignettes’.
• checking examples ... [9s/9s] OK
• checking for unstated dependencies in tests ... OK
• checking tests ... [8s/8s] OK
  Running ‘chopit.R’ [2s/2s]
  Comparing ‘chopit.Rout’ to ‘chopit.Rout.save’ ...15c15
  < ## rgenoud (Version 5.7-8, Build Date: 2012-06-03)
  ---
  > ## rgenoud (Version 5.7-1, Build Date: 2010-08-26)
  17,22d16
  < ## Please cite software as:
  < ## Walter Mebane, Jr. and Jasjeet S. Sekhon. 2011.
  < ## ``Genetic Optimization Using Derivatives: The rgenoud package for R.''
  < ## Journal of Statistical Software, 42(11): 1-26.
  < ##
  <
  Running ‘unit.anchors.R’ [1s/1s]
  Comparing ‘unit.anchors.Rout’ to ‘unit.anchors.Rout.save’ ...12c12
  < ## rgenoud (Version 5.7-8, Build Date: 2012-06-03)
  ---
  > ## rgenoud (Version 5.7-1, Build Date: 2010-08-26)
  14,19d13
  < ## Please cite software as:
  < ## Walter Mebane, Jr. and Jasjeet S. Sekhon. 2011.
  < ## ``Genetic Optimization Using Derivatives: The rgenoud package for R.''
  < ## Journal of Statistical Software, 42(11): 1-26.
  < ##
  <
  Running ‘unit.cpolr.R’ [4s/4s]
  Comparing ‘unit.cpolr.Rout’ to ‘unit.cpolr.Rout.save’ ...4c4
  < ## rgenoud (Version 5.7-8, Build Date: 2012-06-03)
  ---
  > ## rgenoud (Version 5.7-1, Build Date: 2010-08-26)
  6,11d5
  < ## Please cite software as:
  < ## Walter Mebane, Jr. and Jasjeet S. Sekhon. 2011.
  < ## ``Genetic Optimization Using Derivatives: The rgenoud package for R.''
  < ## Journal of Statistical Software, 42(11): 1-26.
  < ##
  <
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in ‘inst/doc’ ... OK
• checking running R code from vignettes ... [17s/17s] OK
• checking re-building of vignette PDFs ... NOTE
  Error in re-building vignettes:
  ...
  (/usr/share/texlive/texmf-dist/tex/generic/xypic/xypdf-cu.tex loaded)
  Xy-pic pdf driver: `frame' extension support
  (/usr/share/texlive/texmf-dist/tex/generic/xypic/xypdf-fr.tex loaded)
  Xy-pic pdf driver: `line' extension support
  (/usr/share/texlive/texmf-dist/tex/generic/xypic/xypdf-li.tex loaded)
  Xy-pic pdf driver: `rotate' extension support
  (/usr/share/texlive/texmf-dist/tex/generic/xypic/xypdf-ro.tex loaded) loaded))
  
  ! LaTeX Error: File `html.sty' not found.
  
  Type X to quit or <RETURN> to proceed,
  or enter new name. (Default extension: sty)
  
  Enter file name:
  ! Emergency stop.
  <read *>
  
  l.30 \usepackage
  {url}^^M
  ! ==> Fatal error occurred, no output PDF file produced!
  Transcript written on anchors.log.
  make: *** [anchors.pdf] Error 1
  Error in buildVignettes(dir = "/home/hornik/tmp/R.check/r-devel/Work/PKGS/anchors.Rcheck/vign_test/anchors") :
  running 'make' failed
  Execution halted
  
• checking PDF version of manual ... OK
  NOTE: There were 4 notes.
  See
  ‘/home/hornik/tmp/R.check/r-devel/Work/PKGS/anchors.Rcheck/00check.log’
  for details.