• using R Under development (unstable) (2012-08-14 r60253)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘Matrix/DESCRIPTION’ ... OK
• this is package ‘Matrix’ version ‘1.0-6’
• package encoding: UTF-8
• 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 whether package ‘Matrix’ can be installed ... [58s/56s] OK
• checking installed package size ... NOTE
  installed size is 6.0Mb
  sub-directories of 1Mb or more:
  doc 1.4Mb
  libs 2.4Mb
• 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 ... WARNING
  Foreign function call(s) with ‘PACKAGE’ argument in a base package:
  .Call("R_set_slot", ..., PACKAGE = "methods")
  See the chapter ‘System and foreign language interfaces’ of the
  ‘Writing R Extensions’ manual.
• checking R code for possible problems ... OK
• 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’ ... OK
• checking examples ... [18s/18s] OK
• checking for unstated dependencies in tests ... OK
• checking tests ... [140s/141s] OK
  Running ‘Class+Meth.R’ [25s/26s]
  Running ‘Simple.R’ [27s/27s]
  Running ‘abIndex-tsts.R’
  Running ‘base-matrix-fun.R’
  Running ‘bind.R’
  Comparing ‘bind.Rout’ to ‘bind.Rout.save’ ... OK
  Running ‘dg_Matrix.R’
  Running ‘dpo-test.R’ [12s/12s]
  Running ‘dtpMatrix.R’
  Running ‘factorizing.R’
  Running ‘group-methods.R’ [10s/10s]
  Running ‘indexing.R’ [27s/28s]
  Comparing ‘indexing.Rout’ to ‘indexing.Rout.save’ ...282,283c282,283
  < Note: Method with signature 'nsparseMatrix#sparseMatrix' chosen for function '==',
  < target signature 'ngCMatrix#ngTMatrix'.
  ---
  > Note: Method with signature "nsparseMatrix#sparseMatrix" chosen for function "==",
  > target signature "ngCMatrix#ngTMatrix".
  693a694,696
  > Note: Method with signature "numeric#sparseVector" chosen for function "coerce",
  > target signature "integer#sparseVector".
  > "atomicVector#sparseVector" would also be valid
  873,874c876,877
  < Note: Method with signature 'sparseMatrix#ldiMatrix' chosen for function '==',
  < target signature 'nsCMatrix#ldiMatrix'.
  ---
  > Note: Method with signature "sparseMatrix#ldiMatrix" chosen for function "==",
  > target signature "nsCMatrix#ldiMatrix".
  879,880c882,883
  < 2*m =?= m+m: Note: Method with signature 'sparseMatrix#ldiMatrix' chosen for function '&',
  < target signature 'nsCMatrix#ldiMatrix'.
  ---
  > 2*m =?= m+m: Note: Method with signature "sparseMatrix#ldiMatrix" chosen for function "&",
  > target signature "nsCMatrix#ldiMatrix".
  1324,1325c1327,1328
  < Note: Method with signature 'sparseMatrix#ANY' chosen for function 'kronecker',
  < target signature 'dtTMatrix#dsyMatrix'.
  ---
  > Note: Method with signature "sparseMatrix#ANY" chosen for function "kronecker",
  > target signature "dtTMatrix#dsyMatrix".
  1665,1666c1668,1669
  < Note: Method with signature 'sparseMatrix#ldiMatrix' chosen for function '==',
  < target signature 'ngCMatrix#ldiMatrix'.
  ---
  > Note: Method with signature "sparseMatrix#ldiMatrix" chosen for function "==",
  > target signature "ngCMatrix#ldiMatrix".
  1690,1691c1693,1694
  < Note: Method with signature 'nsparseMatrix#sparseMatrix' chosen for function '==',
  < target signature 'ngTMatrix#ngTMatrix'.
  ---
  > Note: Method with signature "nsparseMatrix#sparseMatrix" chosen for function "==",
  > target signature "ngTMatrix#ngTMatrix".
  1693,1694c1696,1697
  < Note: Method with signature 'nsparseMatrix#sparseMatrix' chosen for function '!=',
  < target signature 'ngTMatrix#ngTMatrix'.
  ---
  > Note: Method with signature "nsparseMatrix#sparseMatrix" chosen for function "!=",
  > target signature "ngTMatrix#ngTMatrix".
  1696,1697c1699,1700
  < Note: Method with signature 'nsparseMatrix#sparseMatrix' chosen for function '+',
  < target signature 'ngTMatrix#ngTMatrix'.
  ---
  > Note: Method with signature "nsparseMatrix#sparseMatrix" chosen for function "+",
  > target signature "ngTMatrix#ngTMatrix".
  1699,1700c1702,1703
  < Note: Method with signature 'nsparseMatrix#sparseMatrix' chosen for function '>=',
  < target signature 'ngTMatrix#ngTMatrix'.
  ---
  > Note: Method with signature "nsparseMatrix#sparseMatrix" chosen for function ">=",
  > target signature "ngTMatrix#ngTMatrix".
  1702,1703c1705,1706
  < Note: Method with signature 'nsparseMatrix#sparseMatrix' chosen for function '<',
  < target signature 'ngTMatrix#ngTMatrix'.
  ---
  > Note: Method with signature "nsparseMatrix#sparseMatrix" chosen for function "<",
  > target signature "ngTMatrix#ngTMatrix".
  1738,1739c1741,1742
  < Note: Method with signature 'sparseMatrix#ldiMatrix' chosen for function '&',
  < target signature 'ngCMatrix#ldiMatrix'.
  ---
  > Note: Method with signature "sparseMatrix#ldiMatrix" chosen for function "&",
  > target signature "ngCMatrix#ldiMatrix".
  Running ‘matprod.R’
  Running ‘matr-exp.R’
  Running ‘other-pkgs.R’
  Running ‘spModel.matrix.R’
  Running ‘validObj.R’
  Running ‘write-read.R’
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in ‘inst/doc’ ... OK
• checking running R code from vignettes ... [18s/19s] OK
• checking re-building of vignette PDFs ... [20s/20s] OK
• checking PDF version of manual ... OK
  WARNING: There was 1 warning.
  NOTE: There was 1 note.
  See
  ‘/data/blackswan/ripley/R/packages/tests-devel/Matrix.Rcheck/00check.log’
  for details.