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Package 42/251HostnameOS / ArchBUILDCHECKBUILD BIN
BufferedMatrix 1.3.0
Benjamin Milo Bolstad
Snapshot Date: 2007-12-11 00:09:07 -0800 (Tue, 11 Dec 2007)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/BufferedMatrix
Last Changed Rev: 27716 / Revision: 29143
Last Changed Date: 2007-10-02 18:16:39 -0700 (Tue, 02 Oct 2007)
lamb1 Linux (SUSE 10.1) / x86_64  OK  ERROR 
wilson2 Linux (openSUSE 10.3) / x86_64  OK [ ERROR ]
wellington Linux (openSUSE 10.3) / i686  OK  ERROR 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  ERROR  OK 
lemming Windows Server 2003 (32-bit) / x64  OK  ERROR  OK 
Package: BufferedMatrix
Version: 1.3.0
Command: /home/biocbuild/bbs-2.2-bioc/R/bin/R CMD check BufferedMatrix_1.3.0.tar.gz
StartedAt: 2007-12-11 03:17:08 -0700 (Tue, 11 Dec 2007)
EndedAt: 2007-12-11 03:17:28 -0700 (Tue, 11 Dec 2007)
EllapsedTime: 20.5 seconds
RetCode: 1
Status: ERROR
CheckDir: BufferedMatrix.Rcheck
Warnings: NA

Command output

* checking for working latex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.2-bioc/meat/BufferedMatrix.Rcheck'
* using R version 2.7.0 Under development (unstable) (2007-12-06 r43609)
* checking for file 'BufferedMatrix/DESCRIPTION' ... OK
* this is package 'BufferedMatrix' version '1.3.0'
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating BufferedMatrix-Ex.R ... OK
* checking examples ... OK
* checking tests ...
make[1]: Entering directory `/loc/home/biocbuild/bbs-2.2-bioc/meat/BufferedMatrix.Rcheck/tests'
  Running 'Rcodetesting.R'
  Running 'c_code_level_tests.R'
  Running 'objectTesting.R'
make[1]: *** [objectTesting.Rout] Error 1
make[1]: Leaving directory `/loc/home/biocbuild/bbs-2.2-bioc/meat/BufferedMatrix.Rcheck/tests'
make: *** [all] Error 2
 ERROR
Running the tests in 'tests/objectTesting.R' failed.
Last 13 lines of output:
  +   agree.checks(tmp5,copymatrix)
  + 
  +   ### now make 1 element non NA with NA in the rest of row and column
  + 
  +   tmp5[which.row,which.col] <- rnorm(1,150,15)
  +   copymatrix[which.row,which.col] <- tmp5[which.row,which.col]
  + 
  +   agree.checks(tmp5,copymatrix)
  + }
  6   1 
  Error in FUN(newX[, i], ...) : no complete element pairs
  Calls: agree.checks -> apply -> FUN
  Execution halted

BufferedMatrix.Rcheck/00install.out:

/loc/home/biocbuild/bbs-2.2-bioc/meat/BufferedMatrix.Rcheck
* Installing *source* package 'BufferedMatrix' ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c doubleBufferedMatrix.c -o doubleBufferedMatrix.o
doubleBufferedMatrix.c:3327: warning: ‘sort_double’ defined but not used
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c doubleBufferedMatrix_C_tests.c -o doubleBufferedMatrix_C_tests.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c init_package.c -o init_package.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c RBufferedMatrix.c -o RBufferedMatrix.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o BufferedMatrix.so doubleBufferedMatrix.o doubleBufferedMatrix_C_tests.o init_package.o RBufferedMatrix.o   -L/home/biocbuild/bbs-2.2-bioc/R/lib -lR
** R
** inst
** preparing package for lazy loading
Creating a new generic function for "ncol" in "BufferedMatrix"
Creating a new generic function for "nrow" in "BufferedMatrix"
Creating a new generic function for "mean" in "BufferedMatrix"
Creating a new generic function for "as.matrix" in "BufferedMatrix"
** help
Note: ignoring empty \keyword entries
Note: removing empty section \value
Note: removing empty section \details
Note: removing empty section \references
Note: removing empty section \examples
Note: removing empty section \seealso
 >>> 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
** building package indices ...
* DONE (BufferedMatrix)