Package: SLGI

Version: 1.12.0

Command: E:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch SLGI_1.12.0.tar.gz

StartedAt: 2011-10-20 17:03:20 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 17:11:16 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 475.7 seconds

RetCode: 0

Status:  OK

CheckDir: SLGI.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.8-bioc/meat/SLGI.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'SLGI/DESCRIPTION' ... OK
* this is package 'SLGI' version '1.12.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'SLGI' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 25.4Mb
  sub-directories of 1Mb or more:
    data     13.7Mb
    extdata  11.3Mb
* 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 ... NOTE
'library' or 'require' call not declared from: YEAST
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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

* installing *source* package 'SLGI' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a new generic function for "plot" in "SLGI"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (SLGI)

name	user	system	elapsed
Atong	0.05	0.00	0.04
AtongFnDomain	7.83	0.07	7.94
AtongPair	0.90	0.00	0.96
SDL	0	0	0
SGA	0.02	0.00	0.01
SGD.SL	0.14	0.00	0.14
TFmat	0.2	0.0	0.2
byComplex	1.11	0.00	1.13
comemberIn	1.00	0.02	1.02
compare	37.20	0.47	37.79
congruence	0	0	0
createSquareMatrix	0.36	0.00	0.36
domainDist	4.99	0.00	5.02
essglist	0.00	0.01	0.01
getFASTAname	6.40	0.04	6.44
getInteraction	0	0	0
getSharedDomains	0.08	0.01	0.11
getSharedInteraction	0.02	0.00	0.02
getTestedPairs	0	0	0
getUniquePairs	0.03	0.00	0.03
gi2005	0.08	0.00	0.07
gi2007	0.20	0.00	0.21
gi2Interactome	0	0	0
hyperG	0	0	0
iSummary	44.83	2.66	47.67
modelSLGI	50.08	5.61	56.30
normInteraction	19.79	4.79	24.64
plot	52.94	5.47	59.22
seqMatcherAlign	0	0	0
sharedBy	5.83	0.02	5.86
sharedInt	0	0	0
siResult-class	48.58	7.36	56.47
test2Interact	0.01	0.00	0.02
topInteraction	27.00	6.04	33.12
twoWayTable	13.52	0.08	13.73
withinComplex	1.81	0.02	1.88