Package: externalVector

Version: 1.5.2

Command: /home/biocbuild/bbs-2.1-bioc/R/bin/R CMD check externalVector_1.5.2.tar.gz

RetCode: 1

Time: 9.5 seconds

Status: ERROR

CheckDir: externalVector.Rcheck

Warnings: NA

* checking for working latex ... OK
* using log directory '/home/biocbuild/bbs-2.1-bioc/meat/externalVector.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-08-06 r42439)
* checking for file 'externalVector/DESCRIPTION' ... OK
* this is package 'externalVector' version '1.5.2'
* 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 ... ERROR
Installation failed.
See '/home/biocbuild/bbs-2.1-bioc/meat/externalVector.Rcheck/00install.out' for details.

* Installing *source* package 'externalVector' ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c allocator.c -o allocator.o
allocator.c: In function 'gcExternalPtr_new':
allocator.c:32: warning: passing argument 1 of 'R_MakeExternalPtr' discards qualifiers from pointer target type
allocator.c:44: warning: passing argument 1 of 'R_MakeExternalPtr' discards qualifiers from pointer target type
allocator.c: In function 'gcExternalPtr_restore':
allocator.c:76: warning: passing argument 2 of 'R_SetExternalPtrAddr' discards qualifiers from pointer target type
allocator.c: In function 'gcExternalPtr_resizeInternal':
allocator.c:100: warning: passing argument 2 of 'R_SetExternalPtrAddr' discards qualifiers from pointer target type
allocator.c:136: warning: passing argument 1 of 'memcpy' discards qualifiers from pointer target type
allocator.c:141: warning: passing argument 2 of 'R_SetExternalPtrAddr' discards qualifiers from pointer target type
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c arraySummary.c -o arraySummary.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c coerce.c -o coerce.o
coerce.c: In function 'ComplexFromString':
coerce.c:213: warning: initialization discards qualifiers from pointer target type
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c externalVector.c -o externalVector.o
externalVector.c:7: warning: 'ScalarVector' defined but not used
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c groups.c -o groups.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c math.c -o math.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c slice.c -o slice.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c storage.c -o storage.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c subscript.c -o subscript.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o externalVector.so allocator.o arraySummary.o coerce.o externalVector.o groups.o math.o slice.o storage.o subscript.o   -L/home/biocbuild/bbs-2.1-bioc/R/lib -lR
** 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"
Error in match.call(fmatch, fcall) : 
  unused argument(s) (base = "indirectExternalVector")
Error: unable to load R code in package 'externalVector'
Execution halted
ERROR: lazy loading failed for package 'externalVector'
** Removing '/home/biocbuild/bbs-2.1-bioc/meat/externalVector.Rcheck/externalVector'