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PSM log file (check_x86_64_linux)

Wed Apr  4 14:44:27 2012: Checking package PSM (SVN revision 161) ...
* using log directory '/mnt/building/build_2012-04-03-01-52/RF_PKG_CHECK/PKGS/PSM.Rcheck'
* using R version 2.15.0 (2012-03-30)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: ASCII
* checking for file 'PSM/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'PSM' version '0.8-5'
* package encoding: latin1
* checking CRAN incoming feasibility ... WARNING
Insufficient package version (submitted: 0.8.5, existing: 0.8.6)
* 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 'PSM' 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 ... WARNING
Warning in Sys.setlocale("LC_CTYPE", "en_US") :
  OS reports request to set locale to "en_US" cannot be honored
* 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
APL.KF.individualloop: warning in LinKalmanFilter(phi = phi, Model =
  Model, Data = Data, output = TRUE, fast = fast): partial argument
  match of 'output' to 'outputInternals'
APL.KF.individualloop: warning in ExtKalmanFilter(phi = phi, Model =
  Model, Data = Data, output = TRUE): partial argument match of
  'output' to 'outputInternals'
ExtKalmanSmoother: warning in ExtKalmanFilter(phi = phi, Model = Model,
  Data = Data, output = TRUE): partial argument match of 'output' to
  'outputInternals'
* 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 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 ... NOTE
File '/mnt/building/build_2012-04-03-01-52/RF_PKG_CHECK/PKGS/PSM.Rcheck/PSM/libs/PSM.so':
  Found '_gfortran_stop_string', possibly from 'stop' (Fortran)
    Objects: 'matexp.o', 'matutil77.o'

Compiled code should not call functions which might terminate R nor
write to stdout/stderr instead of to the console.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... NOTE
The following directories should probably not be installed:
  'images'

Consider the use of a .Rinstignore file: see 'Writing R Extensions',
or move the vignette sources from 'inst/doc' to 'vignettes'.
* checking examples ... WARNING
checking a package with encoding  'latin1'  in an ASCII locale

 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ...
   'PSM.Rnw' ... OK
 OK
* checking re-building of vignette PDFs ... OK
* checking PDF version of manual ... OK

WARNING: There were 3 warnings.
NOTE: There were 3 notes.
See
  '/mnt/building/build_2012-04-03-01-52/RF_PKG_CHECK/PKGS/PSM.Rcheck/00check.log'
for details.

Run time: 40.53 seconds.