BAGS 2.2.0
Alejandro Quiroz-Zarate
| Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/BAGS | | Last Changed Rev: 81642 / Revision: 88450 | | Last Changed Date: 2013-10-14 14:29:21 -0700 (Mon, 14 Oct 2013) |
| zin1 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | OK | [ OK ] | |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | OK |
* using log directory ‘/home/biocbuild/bbs-2.13-bioc/meat/BAGS.Rcheck’
* using R version 3.0.3 (2014-03-06)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BAGS/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BAGS’ version ‘2.2.0’
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘BAGS’ can be installed ... [3s/3s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... 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 dependencies in R code ... NOTE
Package in Depends field not imported from: ‘Biobase’
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
See the information on DESCRIPTION files in the chapter ‘Creating R
packages’ of the ‘Writing R Extensions’ manual.
* 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 use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking for old-style vignette sources ... NOTE
Vignette sources only in ‘inst/doc’:
‘BAGS.Rnw’
A ‘vignettes’ directory will be required as from R 3.1.0
* checking examples ... [89s/89s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
Gibbs2 52.859 0.248 53.293
MCMCDataSet 18.185 0.100 18.319
DataGeneSets 16.261 0.176 16.511
* 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
NOTE: There were 2 notes.
See
‘/home/biocbuild/bbs-2.13-bioc/meat/BAGS.Rcheck/00check.log’
for details.
* installing *source* package ‘BAGS’ ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.13-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c BAGS.c -o BAGS.o
In file included from BAGS.c:8:0:
FuncionesFast-Final.h: In function ‘BetaFunCSDiff2’:
FuncionesFast-Final.h:145:70: warning: unused variable ‘YMu1’ [-Wunused-variable]
FuncionesFast-Final.h: In function ‘AlfaFunCS’:
FuncionesFast-Final.h:166:105: warning: unused variable ‘MediaDiff’ [-Wunused-variable]
FuncionesFast-Final.h:166:94: warning: unused variable ‘A’ [-Wunused-variable]
FuncionesFast-Final.h:166:92: warning: unused variable ‘C’ [-Wunused-variable]
BAGS.c: In function ‘Gibbs5’:
BAGS.c:25:48: warning: unused variable ‘resI’ [-Wunused-variable]
BAGS.c:25:43: warning: unused variable ‘rate’ [-Wunused-variable]
BAGS.c:25:36: warning: unused variable ‘escala’ [-Wunused-variable]
BAGS.c:25:28: warning: unused variable ‘escala3’ [-Wunused-variable]
BAGS.c:25:20: warning: unused variable ‘escala2’ [-Wunused-variable]
BAGS.c:25:12: warning: unused variable ‘escala1’ [-Wunused-variable]
BAGS.c:24:12: warning: unused variable ‘formaAux’ [-Wunused-variable]
BAGS.c:18:80: warning: variable ‘ResSgmA’ set but not used [-Wunused-but-set-variable]
BAGS.c:15:15: warning: variable ‘AaPi’ set but not used [-Wunused-but-set-variable]
BAGS.c: In function ‘Gibbs4’:
BAGS.c:342:48: warning: unused variable ‘resI’ [-Wunused-variable]
BAGS.c:342:43: warning: unused variable ‘rate’ [-Wunused-variable]
BAGS.c:342:36: warning: unused variable ‘escala’ [-Wunused-variable]
BAGS.c:342:28: warning: unused variable ‘escala3’ [-Wunused-variable]
BAGS.c:342:20: warning: unused variable ‘escala2’ [-Wunused-variable]
BAGS.c:342:12: warning: unused variable ‘escala1’ [-Wunused-variable]
BAGS.c:341:12: warning: unused variable ‘formaAux’ [-Wunused-variable]
BAGS.c:335:63: warning: variable ‘ResSgmA’ set but not used [-Wunused-but-set-variable]
BAGS.c:332:15: warning: variable ‘AaPi’ set but not used [-Wunused-but-set-variable]
BAGS.c: In function ‘Gibbs3’:
BAGS.c:593:48: warning: unused variable ‘resI’ [-Wunused-variable]
BAGS.c:593:43: warning: unused variable ‘rate’ [-Wunused-variable]
BAGS.c:593:36: warning: unused variable ‘escala’ [-Wunused-variable]
BAGS.c:593:28: warning: unused variable ‘escala3’ [-Wunused-variable]
BAGS.c:593:20: warning: unused variable ‘escala2’ [-Wunused-variable]
BAGS.c:593:12: warning: unused variable ‘escala1’ [-Wunused-variable]
BAGS.c:592:12: warning: unused variable ‘formaAux’ [-Wunused-variable]
BAGS.c:586:46: warning: variable ‘ResSgmA’ set but not used [-Wunused-but-set-variable]
BAGS.c:583:15: warning: variable ‘AaPi’ set but not used [-Wunused-but-set-variable]
BAGS.c: In function ‘Gibbs2’:
BAGS.c:786:48: warning: unused variable ‘resI’ [-Wunused-variable]
BAGS.c:786:43: warning: unused variable ‘rate’ [-Wunused-variable]
BAGS.c:786:36: warning: unused variable ‘escala’ [-Wunused-variable]
BAGS.c:786:28: warning: unused variable ‘escala3’ [-Wunused-variable]
BAGS.c:786:20: warning: unused variable ‘escala2’ [-Wunused-variable]
BAGS.c:786:12: warning: unused variable ‘escala1’ [-Wunused-variable]
BAGS.c:785:12: warning: unused variable ‘formaAux’ [-Wunused-variable]
BAGS.c:779:29: warning: variable ‘ResSgmA’ set but not used [-Wunused-but-set-variable]
BAGS.c:776:15: warning: variable ‘AaPi’ set but not used [-Wunused-but-set-variable]
gcc -std=gnu99 -shared -L/usr/local/lib -o BAGS.so BAGS.o -L/home/biocbuild/bbs-2.13-bioc/R/lib -lR
installing to /home/biocbuild/bbs-2.13-bioc/meat/BAGS.Rcheck/BAGS/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (BAGS)