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Package 108/353HostnameOS / ArchBUILDCHECKBUILD BIN
externalVector 1.12.0
Biocore Team c/o BioC user list
Snapshot Date: 2009-12-13 23:30:35 -0800 (Sun, 13 Dec 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_5/madman/Rpacks/externalVector
Last Changed Rev: 42684 / Revision: 43539
Last Changed Date: 2009-10-27 16:33:29 -0700 (Tue, 27 Oct 2009)
wilson2 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK [ OK ] OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
Package: externalVector
Version: 1.12.0
Command: E:\biocbld\bbs-2.5-bioc\R\bin\R.exe CMD check --no-vignettes externalVector_1.12.0.tar.gz
StartedAt: 2009-12-14 04:45:52 -0800 (Mon, 14 Dec 2009)
EndedAt: 2009-12-14 04:47:00 -0800 (Mon, 14 Dec 2009)
EllapsedTime: 67.7 seconds
RetCode: 0
Status: OK
CheckDir: externalVector.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.5-bioc/meat/externalVector.Rcheck'
* using R version 2.10.0 (2009-10-26)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'externalVector/DESCRIPTION' ... OK
* this is package 'externalVector' version '1.12.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'externalVector' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... 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 name space 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 ... NOTE
Arith,externalVectorWithStorage-missing: no visible binding for global
  variable '.generic'
Complex,externalVectorWithStorage: no visible binding for global
  variable 'x'
external.size,externalResource-gcAllocator: no visible binding for
  global variable 'x'
Subset2,ANY-ANY-noneIndex: possible error in Subset(x, i, NULL): unused
  argument(s) (NULL)
Subset2,ANY-noneIndex-ANY: possible error in Subset(x, NULL, j): unused
  argument(s) (j)
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* checking examples ... OK
* checking PDF version of manual ... OK

externalVector.Rcheck/00install.out:

* install options are ' --no-html'

* installing *source* package 'externalVector' ...
** libs
  making DLL ...
gcc -I"e:/biocbld/bbs-2.5-bioc/R/include"        -O3 -Wall  -std=gnu99 -c allocator.c -o allocator.o
gcc -I"e:/biocbld/bbs-2.5-bioc/R/include"        -O3 -Wall  -std=gnu99 -c arraySummary.c -o arraySummary.o
gcc -I"e:/biocbld/bbs-2.5-bioc/R/include"        -O3 -Wall  -std=gnu99 -c coerce.c -o coerce.o
coerce.c: In function 'ComplexFromString':
coerce.c:213: warning: initialization from incompatible pointer type
gcc -I"e:/biocbld/bbs-2.5-bioc/R/include"        -O3 -Wall  -std=gnu99 -c externalVector.c -o externalVector.o
externalVector.c:7: warning: 'ScalarVector' defined but not used
gcc -I"e:/biocbld/bbs-2.5-bioc/R/include"        -O3 -Wall  -std=gnu99 -c groups.c -o groups.o
gcc -I"e:/biocbld/bbs-2.5-bioc/R/include"        -O3 -Wall  -std=gnu99 -c math.c -o math.o
gcc -I"e:/biocbld/bbs-2.5-bioc/R/include"        -O3 -Wall  -std=gnu99 -c slice.c -o slice.o
gcc -I"e:/biocbld/bbs-2.5-bioc/R/include"        -O3 -Wall  -std=gnu99 -c storage.c -o storage.o
gcc -I"e:/biocbld/bbs-2.5-bioc/R/include"        -O3 -Wall  -std=gnu99 -c subscript.c -o subscript.o
gcc -shared -s -o externalVector.dll tmp.def allocator.o arraySummary.o coerce.o externalVector.o groups.o math.o slice.o storage.o subscript.o -Le:/biocbld/bbs-2.5-bioc/R/bin -lR
  ... done
** R
** preparing package for lazy loading
Creating a new generic function for "match" in "externalVector"
Creating a new generic function for "as.vector" in "externalVector"
Creating a new generic function for "as.single" in "externalVector"
Creating a new generic function for "as.list" in "externalVector"
Creating a new generic function for "as.matrix" in "externalVector"
Creating a new generic function for "as.data.frame" in "externalVector"
Restoring the implicit generic function for "colSums" from package "base"
    into package "externalVector"; the generic differs from the default conversion (Formal arguments differ: (x, na.rm, dims), (x, na.rm, dims, ...))
Creating a new generic function for "colSums" in "externalVector"
Restoring the implicit generic function for "colMeans" from package "base"
    into package "externalVector"; the generic differs from the default conversion (Formal arguments differ: (x, na.rm, dims), (x, na.rm, dims, ...))
Creating a new generic function for "colMeans" in "externalVector"
Restoring the implicit generic function for "rowSums" from package "base"
    into package "externalVector"; the generic differs from the default conversion (Formal arguments differ: (x, na.rm, dims), (x, na.rm, dims, ...))
Creating a new generic function for "rowSums" in "externalVector"
Restoring the implicit generic function for "rowMeans" from package "base"
    into package "externalVector"; the generic differs from the default conversion (Formal arguments differ: (x, na.rm, dims), (x, na.rm, dims, ...))
Creating a new generic function for "rowMeans" in "externalVector"
Creating a new generic function for "apply" in "externalVector"
Creating a new generic function for "lapply" in "externalVector"
Creating a new generic function for "sapply" in "externalVector"
Creating a new generic function for "mean" in "externalVector"
Creating a new generic function for "median" in "externalVector"
Creating a generic for "var" in package "externalVector"
    (the supplied definition differs from and overrides the implicit generic
    in package "stats": Formal arguments differ (in default values?))
Creating a generic for "cov" in package "externalVector"
    (the supplied definition differs from and overrides the implicit generic
    in package "stats": Formal arguments differ (in default values?))
Creating a generic for "cor" in package "externalVector"
    (the supplied definition differs from and overrides the implicit generic
    in package "stats": Formal arguments differ (in default values?))
Creating a new generic function for "cov2cor" in "externalVector"
** help
*** installing help indices
** building package indices ...
** MD5 sums
* DONE (externalVector)