GeneticsPed 1.8.0
The R Genetics Project
| 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/GeneticsPed | | 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 |
* checking for working pdflatex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.5-bioc/meat/GeneticsPed.Rcheck'
* using R version 2.10.0 (2009-10-26)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'GeneticsPed/DESCRIPTION' ... OK
* this is package 'GeneticsPed' version '1.8.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'GeneticsPed' 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 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 ... 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 data for non-ASCII characters ... 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 tests ...
Running ‘doRUnit.R’
OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK
* install options are ' --no-html'
* installing *source* package ‘GeneticsPed’ ...
** libs
g++ -I/home/biocbuild/bbs-2.5-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c ainverse.cc -o ainverse.o
g++ -I/home/biocbuild/bbs-2.5-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c eibd.cc -o eibd.o
gfortran -fpic -g -O -Wall -c ggmatmult.f -o ggmatmult.o
gfortran -fpic -g -O -Wall -c gpi.f -o gpi.o
g++ -I/home/biocbuild/bbs-2.5-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c inbreed.cc -o inbreed.o
g++ -I/home/biocbuild/bbs-2.5-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c inverseAdditive.cc -o inverseAdditive.o
g++ -I/home/biocbuild/bbs-2.5-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c meuwissen.cc -o meuwissen.o
g++ -I/home/biocbuild/bbs-2.5-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c pedSort.cc -o pedSort.o
g++ -I/home/biocbuild/bbs-2.5-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c pedtemplate.cc -o pedtemplate.o
g++ -I/home/biocbuild/bbs-2.5-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c register.cc -o register.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.5-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c sargolzaei.c -o sargolzaei.o
sargolzaei.c: In function ‘sargolzaei’:
sargolzaei.c:96: warning: comparison between pointer and integer
sargolzaei.c:19: warning: ‘S’ may be used uninitialized in this function
sargolzaei.c:19: warning: ‘MIP’ may be used uninitialized in this function
g++ -I/home/biocbuild/bbs-2.5-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c sortped.cc -o sortped.o
g++ -shared -L/usr/local/lib64 -o GeneticsPed.so ainverse.o eibd.o ggmatmult.o gpi.o inbreed.o inverseAdditive.o meuwissen.o pedSort.o pedtemplate.o register.o sargolzaei.o sortped.o -lgfortran -lm -L/home/biocbuild/bbs-2.5-bioc/R/lib -lR
** R
** data
** inst
** preparing package for lazy loading
Attaching package: 'gdata'
The following object(s) are masked from package:utils :
object.size
Loading required package: combinat
Attaching package: 'combinat'
The following object(s) are masked from package:utils :
combn
Loading required package: gtools
Loading required package: MASS
Loading required package: mvtnorm
NOTE: THIS PACKAGE IS NOW OBSOLETE.
The R-Genetics project has developed an set of enhanced genetics
packages to replace 'genetics'. Please visit the project homepage
at http://rgenetics.org for informtion.
Attaching package: 'genetics'
The following object(s) are masked from package:base :
%in%,
as.factor,
order
** help
*** installing help indices
** building package indices ...
* DONE (GeneticsPed)