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Package 314/609HostnameOS / ArchBUILDCHECKBUILD BIN
inveRsion 1.6.0
Alejandro Caceres
Snapshot Date: 2013-03-24 16:21:20 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_11/madman/Rpacks/inveRsion
Last Changed Rev: 70050 / Revision: 74773
Last Changed Date: 2012-10-01 15:16:24 -0700 (Mon, 01 Oct 2012)
lamb1 Linux (openSUSE 12.1) / x86_64  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: inveRsion
Version: 1.6.0
Command: /home/biocbuild/bbs-2.11-bioc/R/bin/R CMD check --no-vignettes --timings inveRsion_1.6.0.tar.gz
StartedAt: 2013-03-25 02:22:48 -0700 (Mon, 25 Mar 2013)
EndedAt: 2013-03-25 02:23:21 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 32.8 seconds
RetCode: 0
Status:  OK 
CheckDir: inveRsion.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/inveRsion.Rcheck’
* using R version 2.15.3 (2013-03-01)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘inveRsion/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘inveRsion’ version ‘1.6.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking whether package ‘inveRsion’ can be installed ... OK
* checking installed package size ... 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 for left-over 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 package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... 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 Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

inveRsion.Rcheck/00install.out:

* installing *source* package ‘inveRsion’ ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.11-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -Wall -c init_inveRsion.c -o init_inveRsion.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.11-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -Wall -c inversionModel.c -o inversionModel.o
inversionModel.c: In function ‘blockAndLev’:
inversionModel.c:185:9: warning: suggest parentheses around comparison in operand of ‘&’ [-Wparentheses]
inversionModel.c:167:8: warning: unused variable ‘ncol’ [-Wunused-variable]
inversionModel.c: In function ‘inversionModel’:
inversionModel.c:316:4: warning: "/*" within comment [-Wcomment]
inversionModel.c:360:4: warning: suggest parentheses around comparison in operand of ‘&’ [-Wparentheses]
inversionModel.c:237:26: warning: unused variable ‘i’ [-Wunused-variable]
inversionModel.c:237:8: warning: unused variable ‘ncol’ [-Wunused-variable]
inversionModel.c:459:13: warning: ‘LoglikeInv’ may be used uninitialized in this function [-Wuninitialized]
gcc -std=gnu99 -I/home/biocbuild/bbs-2.11-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -Wall -c writeGenoDat.c -o writeGenoDat.o
writeGenoDat.c: In function ‘writeGenoDat’:
writeGenoDat.c:36:20: warning: unused variable ‘fm’ [-Wunused-variable]
writeGenoDat.c:36:15: warning: unused variable ‘fa’ [-Wunused-variable]
writeGenoDat.c:34:16: warning: ‘dat’ may be used uninitialized in this function [-Wuninitialized]
gcc -std=gnu99 -shared -L/usr/local/lib64 -o inveRsion.so init_inveRsion.o inversionModel.o writeGenoDat.o -L/home/biocbuild/bbs-2.11-bioc/R/lib -lRlapack -L/home/biocbuild/bbs-2.11-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-2.11-bioc/R/lib -lR
installing to /loc/home/biocbuild/bbs-2.11-bioc/meat/inveRsion.Rcheck/inveRsion/libs
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for ‘plot’ from package ‘graphics’ in package ‘inveRsion’
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘inveRsion.Rnw’ 
** testing if installed package can be loaded

* DONE (inveRsion)

inveRsion.Rcheck/inveRsion-Ex.timings:

nameusersystemelapsed
GenoDat-class0.0840.0000.083
GenoDatROI-class0.0160.0000.016
HaploCode-class0.1400.0040.266
ac0.0040.0000.016
accBic2.1120.0002.366
accuracy-class0.0040.0000.017
codeHaplo0.080.000.10
gDat0.0080.0000.006
getClassif-methods0.2240.0000.227
getInv-methods0.0000.0040.003
getROIs-methods0.0000.0000.003
hapCode0.0080.0040.013
invList0.0040.0000.004
inveRsion-package000
inversionList-class0.0040.0000.003
listInv-methods0.7040.0200.753
scan-class0.0160.0000.016
scanInv0.1200.0000.118
scanRes0.0080.0000.024
setUpGenoDatFile0.0120.0000.021