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Package 319/353HostnameOS / ArchBUILDCHECKBUILD BIN
SMAP 1.10.1
Robin Andersson
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/SMAP
Last Changed Rev: 42737 / Revision: 43539
Last Changed Date: 2009-10-29 14:46:41 -0700 (Thu, 29 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 
Package: SMAP
Version: 1.10.1
Command: /home/biocbuild/bbs-2.5-bioc/R/bin/R CMD check --no-vignettes SMAP_1.10.1.tar.gz
StartedAt: 2009-12-14 06:32:54 -0800 (Mon, 14 Dec 2009)
EndedAt: 2009-12-14 06:33:26 -0800 (Mon, 14 Dec 2009)
EllapsedTime: 31.5 seconds
RetCode: 0
Status: OK
CheckDir: SMAP.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.5-bioc/meat/SMAP.Rcheck'
* using R version 2.10.0 (2009-10-26)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'SMAP/DESCRIPTION' ... OK
* this is package 'SMAP' version '1.10.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'SMAP' 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 package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

SMAP.Rcheck/00install.out:

* install options are ' --no-html'

* installing *source* package ‘SMAP’ ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.5-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c gradient.c -o gradient.o
gradient.c: In function ‘hmm_update’:
gradient.c:247: warning: unused variable ‘tmp’
gcc -std=gnu99 -I/home/biocbuild/bbs-2.5-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c init.c -o init.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.5-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c overlap.c -o overlap.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.5-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c prob.c -o prob.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.5-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c viterbi.c -o viterbi.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o SMAP.so gradient.o init.o overlap.o prob.o viterbi.o -L/home/biocbuild/bbs-2.5-bioc/R/lib -lR
** R
** data
** inst
** preparing package for lazy loading
Creating a new generic function for "plot" in "SMAP"
** help
*** installing help indices
** building package indices ...
* DONE (SMAP)