• using R version 2.14.1 Patched (2012-02-05 r58287)
• using platform: i686-pc-linux-gnu (32-bit)
• using session charset: UTF-8
• checking for file ‘TIMP/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘TIMP’ version ‘1.10.1’
• 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 whether package ‘TIMP’ 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 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 ‘TIMP/R/zzz.R’:
  .onLoad has wrong argument list ‘lib, pack’
  
  Package startup functions should have two arguments with names starting
  with ‘lib’ and ‘pkg’, respectively.
  See section ‘Good practice’ in ?.onAttach.
  
  barplot3: warning in matrix(w.m, nc = NC): partial argument match of
  'nc' to 'ncol'
  fitModel: warning in rescomp(t = currModel@fit@nlsres$onls$m$getPars(),
  currModel = currModel): partial argument match of 't' to 'theta'
  fitModel: warning in rescomp(t = currModel@fit@nlsres$onls$par,
  currModel = currModel): partial argument match of 't' to 'theta'
  getStdErrClp: warning in assign("model", m[[dset]], env = numenv):
  partial argument match of 'env' to 'envir'
  getStdErrClp: warning in assign("group", group, env = numenv): partial
  argument match of 'env' to 'envir'
  getStdErrClp: warning in assign("rawtheta", rawtheta, env = numenv):
  partial argument match of 'env' to 'envir'
  getStdErrClp: warning in assign("multimodel", multimodel, env =
  numenv): partial argument match of 'env' to 'envir'
  getStdErrClp: warning in assign("thetalist", thetalist, env = numenv):
  partial argument match of 'env' to 'envir'
  getStdErrClp: warning in assign("clpindepX", clpindepX, env = numenv):
  partial argument match of 'env' to 'envir'
  getStdErrClp: warning in assign("finished", FALSE, env = numenv):
  partial argument match of 'env' to 'envir'
  getStdErrClp: warning in assign("returnX", TRUE, env = numenv): partial
  argument match of 'env' to 'envir'
• 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 ... NOTE
  
  Note: significantly better compression could be obtained
  by using R CMD build --resave-data
  old_size new_size compress
  donorAcceptorTagged.rda 123Kb 66Kb bzip2
  donorTagged.rda 126Kb 70Kb bzip2
  target.rda 80Kb 69Kb xz
• checking line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking compiled code ... OK
• checking examples ... OK
• checking for unstated dependencies in tests ... OK
• checking tests ... OK
  Running ‘example2nd.R’
  Running ‘kin_sim_large_script.R’
  Running ‘kin_simple_ir_script.R’
  Running ‘kin_simple_visible_script.R’
  Running ‘kin_target_script.R’
  Running ‘spectral_script.R’
• checking PDF version of manual ... OK