* using log directory 'd:/Rcompile/CRANpkg/local/2.13/hyperSpec.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* checking for file 'hyperSpec/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'hyperSpec' version '0.98-20120224'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'hyperSpec' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... 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 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
Warning: local assignments to syntactic functions: ~
* 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 R/sysdata.rda ... OK
* checking sizes of PDF files under inst/doc ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... WARNING
Errors in running code in vignettes:
when running code in 'flu.Rnw'
  ...
+     funs <- ls(envir = getNamespace("hyperSpec"), pattern = pattern)
+     funs <- paste("\\\\Rfunction{", funs, .... [TRUNCATED] 

> source("scan.txt.PerkinElmer.R")
Warning in file(file, "r", encoding = encoding) :
  cannot open file 'scan.txt.PerkinElmer.R': No such file or directory

  When sourcing 'flu.R':
Error: cannot open the connection
Execution halted
when running code in 'introduction.Rnw'
  ...
+     functions <- subset(functions, !internal)
+     functions$group <- functions$group .... [TRUNCATED] 

> make.fn.table()
Warning in readChar(con, 5L, useBytes = TRUE) :
  cannot open compressed file 'functions.RData', probable reason 'No such file or directory'

  When sourcing 'introduction.R':
Error: cannot open the connection
Execution halted
when running code in 'laser.Rnw'
  ...
\item[\Rpackage{rgl}:] available

> laser <- scan.txt.Renishaw("rawdata/laser.txt.gz", 
+     data = "ts")
Warning in gzfile(file, "r") :
  cannot open compressed file 'rawdata/laser.txt.gz', probable reason 'No such file or directory'

  When sourcing 'laser.R':
Error: cannot open the connection
Execution halted

* checking re-building of vignettes ... NOTE
Error in re-building vignettes:
  ...
Tracing function "spc.fit.poly.below" in package "hyperSpec"
Untracing function "spc.fit.poly.below" in package "hyperSpec"
Tracing function "spc.fit.poly.below" in package "hyperSpec"
Iteration 1 : 300 supporting points
Iteration 2 : 150 supporting points
Iteration 3 : 91 supporting points
Iteration 4 : 51 supporting points
Iteration 5 : 36 supporting points
Iteration 6 : 29 supporting points
Iteration 7 : 25 supporting points
Iteration 8 : 22 supporting points
Iteration 9 : 20 supporting points
Iteration 10 : 20 supporting points
Untracing function "spc.fit.poly.below" in package "hyperSpec"
Warning: running command '"d:\compiler\texmf\miktex\bin\texi2dvi.exe" --quiet --pdf "chondro.tex"  -I "d:/Rcompile/recent/R-2.13.2/share/texmf/tex/latex" -I "d:/Rcompile/recent/R-2.13.2/share/texmf/bibtex/bst"' had status 1
Error: running 'texi2dvi' on 'chondro.tex' failed

LaTeX errors:
! Emergency stop
*** (job aborted, no legal \end found)

 
Here is how much of TeX's memory you used:
!  ==> Fatal error occurred, no output PDF file produced!
Execution halted

* checking PDF version of manual ... OK
WARNING: There was 1 warning, see
  'd:/Rcompile/CRANpkg/local/2.13/hyperSpec.Rcheck/00check.log'
for details