Package: BufferedMatrix

Version: 1.1.0

Command: /loc/biocbuild/bbs-2.1-bioc/R/bin/R CMD check BufferedMatrix_1.1.0.tar.gz

RetCode: 0

Time: 122.2 seconds

Status: OK

CheckDir: BufferedMatrix.Rcheck

Warnings: 0

* checking for working latex ... OK
* using log directory '/loc/biocbuild/bbs-2.1-bioc/meat/BufferedMatrix.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-04-17 r41210)
* checking for file 'BufferedMatrix/DESCRIPTION' ... OK
* this is package 'BufferedMatrix' version '1.1.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'BufferedMatrix' can be installed ... 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 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 ... OK
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking for CRLF line endings in C/C++/Fortran sources/headers ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating BufferedMatrix-Ex.R ... OK
* checking examples ... OK
* checking tests ...
make[1]: Entering directory `/loc/biocbuild/bbs-2.1-bioc/meat/BufferedMatrix.Rcheck/tests'
  Running 'Rcodetesting.R'
  Running 'c_code_level_tests.R'
  Running 'objectTesting.R'
  Running 'rawCalltesting.R'
make[1]: Leaving directory `/loc/biocbuild/bbs-2.1-bioc/meat/BufferedMatrix.Rcheck/tests'
 OK
* checking package vignettes in 'inst/doc' ... OK
* creating BufferedMatrix-manual.tex ... OK
* checking BufferedMatrix-manual.tex ... OK

* Installing *source* package 'BufferedMatrix' ...
** libs
gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fPIC  -g -O2 -Wall -c RBufferedMatrix.c -o RBufferedMatrix.o
gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fPIC  -g -O2 -Wall -c doubleBufferedMatrix.c -o doubleBufferedMatrix.o
doubleBufferedMatrix.c:3323: warning: 'sort_double' defined but not used
gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fPIC  -g -O2 -Wall -c doubleBufferedMatrix_C_tests.c -o doubleBufferedMatrix_C_tests.o
doubleBufferedMatrix_C_tests.c: In function 'dbm_c_tester':
doubleBufferedMatrix_C_tests.c:26: warning: implicit declaration of function 'Rprintf'
gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fPIC  -g -O2 -Wall -c init_package.c -o init_package.o
gcc -std=gnu99 -G -L/usr/local/lib -o BufferedMatrix.so RBufferedMatrix.o doubleBufferedMatrix.o doubleBufferedMatrix_C_tests.o init_package.o   -L/loc/biocbuild/bbs-2.1-bioc/R/lib -lR
** R
** inst
** save image
[1] "buffer.dim"
[1] "is.ColMode"
[1] "is.RowMode"
[1] "RowMode"
[1] "ColMode"
[1] "set.buffer.dim"
[1] "prefix"
[1] "directory"
[1] "filenames"
[1] "duplicate"
[1] "ewApply"
[1] "pow"
[1] "Max"
[1] "Min"
[1] "Sum"
[1] "Var"
[1] "Sd"
[1] "rowMeans"
[1] "rowSums"
[1] "rowVars"
[1] "rowSd"
[1] "rowMax"
[1] "rowMin"
[1] "colMeans"
[1] "colSums"
[1] "colVars"
[1] "colSd"
[1] "colMax"
[1] "colMin"
[1] "colMedians"
[1] "colRanges"
[1] "colApply"
[1] "rowApply"
[1] "subBufferedMatrix"
[1] "rownames"
[1] "colnames"
[1] "colnames<-"
[1] "rownames<-"
[1] "ReadOnlyMode"
[1] "is.ReadOnlyMode"
[1] "memory.usage"
[1] "disk.usage"
[1] "AddColumn"
[1] "BufferedMatrix"
[1] "dim"
[1] "buffer.dim"
[1] "["
[1] "[<-"
[1] "show"
Creating a new generic function for "ncol" in "BufferedMatrix"
[1] "ncol"
Creating a new generic function for "nrow" in "BufferedMatrix"
[1] "nrow"
[1] "is.ColMode"
[1] "is.RowMode"
[1] "RowMode"
[1] "ColMode"
[1] "set.buffer.dim"
[1] "prefix"
[1] "directory"
[1] "filenames"
[1] "duplicate"
[1] "ewApply"
[1] "sqrt"
[1] "exp"
Creating a new generic function for "log" in "BufferedMatrix"
[1] "log"
[1] "pow"
[1] "Max"
[1] "Min"
Creating a new generic function for "mean" in "BufferedMatrix"
[1] "mean"
[1] "Sum"
[1] "Var"
[1] "Sd"
[1] "rowMeans"
[1] "rowSums"
[1] "rowVars"
[1] "rowSd"
[1] "rowMax"
[1] "rowMin"
[1] "colMeans"
[1] "colSums"
[1] "colVars"
[1] "colSd"
[1] "colMax"
[1] "colMin"
[1] "colMedians"
[1] "colRanges"
[1] "colApply"
[1] "rowApply"
Creating a new generic function for "as.matrix" in "BufferedMatrix"
[1] "as.matrix"
[1] "subBufferedMatrix"
[1] "rownames"
[1] "colnames"
[1] "colnames<-"
[1] "rownames<-"
[1] "dimnames"
[1] "dimnames<-"
[1] "ReadOnlyMode"
[1] "is.ReadOnlyMode"
[1] "memory.usage"
[1] "disk.usage"
[1] "AddColumn"
** help
 >>> Building/Updating help pages for package 'BufferedMatrix'
     Formats: text html latex example 
  BufferedMatrix-class              text    html    latex
  as.BufferedMatrix                 text    html    latex
  createBufferedMatrix              text    html    latex   example
** building package indices ...
* DONE (BufferedMatrix)