Package: Pi

Version: 1.6.2

Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings Pi_1.6.2.tar.gz

StartedAt: 2018-04-12 01:48:28 -0400 (Thu, 12 Apr 2018)

EndedAt: 2018-04-12 01:53:57 -0400 (Thu, 12 Apr 2018)

EllapsedTime: 329.0 seconds

RetCode: 0

Status:  OK

CheckDir: Pi.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings Pi_1.6.2.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.6-bioc/meat/Pi.Rcheck’
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Pi/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Pi’ version ‘1.6.2’
* 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 ‘Pi’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.9Mb
  sub-directories of 1Mb or more:
    doc   5.0Mb
* 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 loading without being on the library search path ... OK
* checking 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.6-bioc/meat/Pi.Rcheck/00check.log’
for details.

* installing *source* package ‘Pi’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (Pi)

name	user	system	elapsed
cTarget	0	0	0
dTarget	0.000	0.000	0.001
eGSEA	0	0	0
eTarget	0.004	0.000	0.000
pNode	0.000	0.000	0.001
pPerf	0	0	0
sGS	0.000	0.004	0.000
sTarget	0	0	0
xContour	0.028	0.000	0.029
xGSEAbarplot	0.000	0.000	0.001
xGSEAconciser	0	0	0
xGSEAdotplot	0.000	0.000	0.001
xGSsimulator	0.000	0.000	0.001
xMLcaret	0	0	0
xMLcompare	0	0	0
xMLdensity	0.000	0.000	0.001
xMLdotplot	0	0	0
xMLfeatureplot	0	0	0
xMLglmnet	0.000	0.000	0.001
xMLparameters	0.000	0.000	0.001
xMLrandomforest	0	0	0
xMLzoom	0.000	0.000	0.001
xPCHiCplot	0.100	0.008	0.735
xPier	0.000	0.000	0.001
xPierAnno	0.888	0.004	1.517
xPierCross	0	0	0
xPierEvidence	0	0	0
xPierGSEA	0.000	0.004	0.002
xPierGenes	0.124	0.000	0.767
xPierManhattan	0.000	0.000	0.003
xPierMatrix	0.000	0.000	0.001
xPierPathways	0.004	0.000	0.002
xPierROCR	0.000	0.000	0.001
xPierSNPs	0.120	0.008	0.755
xPierSNPsAdv	0.180	0.000	0.808
xPierSNPsConsensus	0.096	0.004	0.727
xPierSubnet	0.152	0.004	0.780
xPierTrack	0.092	0.004	0.724
xPierTrackAdv	0.152	0.000	0.781
xPredictCompare	0.000	0.000	0.001
xPredictROCR	0.004	0.000	0.001
xRWR	0.004	0.000	0.003
xSNP2cGenes	0.140	0.008	0.676
xSNP2eGenes	0.148	0.004	0.683
xSNPeqtl	0.164	0.000	0.691
xSNPhic	0.152	0.000	0.683
xVisEvidence	0.004	0.000	0.001