Package: inveRsion

Version: 1.0.0

Command: D:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch inveRsion_1.0.0.tar.gz

StartedAt: 2011-10-20 14:55:39 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 14:56:34 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 54.3 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: inveRsion.Rcheck

Warnings: 1

* using log directory 'D:/biocbld/bbs-2.8-bioc/meat/inveRsion.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'inveRsion/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'inveRsion' version '1.0.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... 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 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 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 examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... WARNING
Package vignette(s) without corresponding PDF:
   inveRsion.Rnw

* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

WARNING: There was 1 warning, see
  'D:/biocbld/bbs-2.8-bioc/meat/inveRsion.Rcheck/00check.log'
for details

* installing *source* package 'inveRsion' ...
** libs
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.8-B/R/include"          -O2 -Wall  -std=gnu99 -c init_inveRsion.c -o init_inveRsion.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.8-B/R/include"          -O2 -Wall  -std=gnu99 -c inversionModel.c -o inversionModel.o
inversionModel.c: In function 'blockAndLev':
inversionModel.c:185:9: warning: suggest parentheses around comparison in operand of '&'
inversionModel.c:167:8: warning: unused variable 'ncol'
inversionModel.c: In function 'inversionModel':
inversionModel.c:358:4: warning: suggest parentheses around comparison in operand of '&'
inversionModel.c:237:26: warning: unused variable 'i'
inversionModel.c:237:8: warning: unused variable 'ncol'
inversionModel.c:453:11: warning: 'LoglikeInv' may be used uninitialized in this function
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.8-B/R/include"          -O2 -Wall  -std=gnu99 -c writeGenoDat.c -o writeGenoDat.o
writeGenoDat.c: In function 'writeGenoDat':
writeGenoDat.c:36:20: warning: unused variable 'fm'
writeGenoDat.c:36:15: warning: unused variable 'fa'
writeGenoDat.c:34:16: warning: 'dat' may be used uninitialized in this function
x86_64-w64-mingw32-gcc -shared -s -static-libgcc -o inveRsion.dll tmp.def init_inveRsion.o inversionModel.o writeGenoDat.o -LD:/biocbld/BBS-2˜1.8-B/R/bin/x64 -lRlapack -LD:/biocbld/BBS-2˜1.8-B/R/bin/x64 -lRblas -lgfortran -LD:/biocbld/BBS-2˜1.8-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.8-bioc/meat/inveRsion.Rcheck/inveRsion/libs/x64
** R
** data
** inst
** preparing package for lazy loading
Creating a new generic function for "plot" in "inveRsion"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

Hola!
welcome to inevRsion package. 
 
 
type: manual() for full manual 
      vignette("inveRsion") for a quick start 

* DONE (inveRsion)

name	user	system	elapsed
GenoDat-class	0.02	0.00	0.01
GenoDatROI-class	0.01	0.00	0.02
HaploCode-class	0.10	0.00	0.09
ac	0.01	0.00	0.02
accBic	2.52	0.00	2.51
accuracy-class	0	0	0
codeHaplo	0.09	0.01	0.11
gDat	0	0	0
getClassif-methods	0.3	0.0	0.3
getInv-methods	0	0	0
getROIs-methods	0.00	0.02	0.02
hapCode	0.01	0.00	0.01
invList	0.02	0.00	0.02
inveRsion-package	0	0	0
inversionList-class	0	0	0
listInv-methods	14.51	0.00	14.52
scan-class	0.02	0.00	0.01
scanInv	13.79	0.00	13.86
scanRes	0.02	0.00	0.02
setUpGenoDatFile	0	0	0