BioC 3.3: CHECK report for supraHex on morelia

Package: supraHex

Version: 1.9.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings supraHex_1.9.0.tar.gz

StartedAt: 2015-10-22 11:50:10 -0400 (Thu, 22 Oct 2015)

EndedAt: 2015-10-22 11:50:50 -0400 (Thu, 22 Oct 2015)

EllapsedTime: 40.1 seconds

RetCode: 0

Status:  OK

CheckDir: supraHex.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings supraHex_1.9.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.3-bioc/meat/supraHex.Rcheck’
* using R Under development (unstable) (2015-10-08 r69496)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘supraHex/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘supraHex’ version ‘1.9.0’
* 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 ‘supraHex’ can be installed ... [2s/2s] 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 ... 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [8s/9s] 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: OK

* installing *source* package ‘supraHex’ ...
** 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 (supraHex)

name	user	system	elapsed
sBMH	0.038	0.002	0.041
sCompReorder	0.631	0.014	0.649
sDistance	0.082	0.001	0.082
sDmat	0.101	0.002	0.103
sDmatCluster	0.164	0.002	0.166
sDmatMinima	0.105	0.002	0.108
sHexDist	0.003	0.001	0.003
sHexGrid	0.002	0.000	0.002
sInitial	0.002	0.000	0.003
sMapOverlay	0.188	0.006	0.195
sNeighAny	0.009	0.001	0.011
sNeighDirect	0.009	0.000	0.010
sPipeline	0.246	0.006	0.253
sTopology	0.014	0.004	0.017
sTrainBatch	0.039	0.001	0.040
sTrainSeq	0.310	0.001	0.311
sTrainology	0.004	0.000	0.003
sWriteData	0.159	0.003	0.162
visColoralpha	0.004	0.000	0.004
visColorbar	0.031	0.003	0.035
visColormap	0.004	0.000	0.004
visCompReorder	1.071	0.030	1.146
visDmatCluster	0.235	0.024	0.260
visDmatHeatmap	0.151	0.006	0.157
visHeatmap	0.074	0.000	0.075
visHeatmapAdv	0.358	0.004	1.100
visHexAnimate	0.001	0.001	0.000
visHexComp	0.088	0.004	0.093
visHexGrid	0.077	0.003	0.080
visHexMapping	1.000	0.051	1.052
visHexMulComp	0.746	0.025	0.772
visHexPattern	1.035	0.068	1.104
visKernels	0.007	0.004	0.011
visTreeBootstrap	0.134	0.004	0.166
visVp	0.035	0.006	0.041