GeneticsPed 1.6.0
The R Genetics Project
| Bioconductor Changelog | | Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/GeneticsPed | | Last Changed Rev: 39013 / Revision: 42512 | | Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009) |
| wilson1 | 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 'E:/biocbld/bbs-2.4-bioc/meat/GeneticsPed.Rcheck'
* using R version 2.9.2 (2009-08-24)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GeneticsPed/DESCRIPTION' ... OK
* this is package 'GeneticsPed' version '1.6.0'
* 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 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 files against version 2 parser ... 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
* Installing *source* package 'GeneticsPed' ...
** libs
making DLL ...
g++ -I"e:/biocbld/bbs-2.4-bioc/R/include" -O2 -Wall -c ainverse.cc -o ainverse.o
g++ -I"e:/biocbld/bbs-2.4-bioc/R/include" -O2 -Wall -c eibd.cc -o eibd.o
gfortran -O3 -c ggmatmult.f -o ggmatmult.o
gfortran -O3 -c gpi.f -o gpi.o
g++ -I"e:/biocbld/bbs-2.4-bioc/R/include" -O2 -Wall -c inbreed.cc -o inbreed.o
g++ -I"e:/biocbld/bbs-2.4-bioc/R/include" -O2 -Wall -c inverseAdditive.cc -o inverseAdditive.o
g++ -I"e:/biocbld/bbs-2.4-bioc/R/include" -O2 -Wall -c meuwissen.cc -o meuwissen.o
g++ -I"e:/biocbld/bbs-2.4-bioc/R/include" -O2 -Wall -c pedSort.cc -o pedSort.o
g++ -I"e:/biocbld/bbs-2.4-bioc/R/include" -O2 -Wall -c pedtemplate.cc -o pedtemplate.o
g++ -I"e:/biocbld/bbs-2.4-bioc/R/include" -O2 -Wall -c register.cc -o register.o
gcc -I"e:/biocbld/bbs-2.4-bioc/R/include" -O3 -Wall -std=gnu99 -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"e:/biocbld/bbs-2.4-bioc/R/include" -O2 -Wall -c sortped.cc -o sortped.o
g++ -shared -s -o GeneticsPed.dll tmp.def 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 -Le:/biocbld/bbs-2.4-bioc/R/bin -lR
... done
** 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/Updating help pages for package 'GeneticsPed'
Formats: text html latex example chm
TDT text html latex example chm
check text html latex example chm
datasets text html latex example chm
extend text html latex example chm
family text html latex example chm
founder text html latex example chm
geneContribution text html latex example chm
generatePedigree text html latex example chm
generation text html latex example chm
gpi text html latex example chm
gpiUtil text html latex example chm
inbreeding text html latex example chm
model.matrix text html latex example chm
nIndividual text html latex example chm
pedigree text html latex example chm
prune text html latex example chm
relationshipAdditive text html latex example chm
removeIndividual text html latex example chm
sort.pedigree text html latex example chm
summary.pedigree text html latex example chm
undocumented text html latex chm
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\BBS-2~1.4-B\meat\GENETI~3.RCH\00_PKG~1\GENETI~1\chm\GeneticsPed.chm
Compile time: 0 minutes, 0 seconds
22 Topics
109 Local links
13 Internet links
1 Graphic
Created e:\biocbld\BBS-2~1.4-B\meat\GENETI~3.RCH\00_PKG~1\GENETI~1\chm\GeneticsPed.chm, 55,812 bytes
Compression decreased file by 47,298 bytes.
** building package indices ...
** MD5 sums
* DONE (GeneticsPed)