BioC 3.0: CHECK report for supraHex on perceval

Package: supraHex

Version: 1.4.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch supraHex_1.4.0.tar.gz

StartedAt: 2015-04-10 06:52:18 -0700 (Fri, 10 Apr 2015)

EndedAt: 2015-04-10 06:53:25 -0700 (Fri, 10 Apr 2015)

EllapsedTime: 66.5 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 --no-multiarch supraHex_1.4.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.0-bioc/meat/supraHex.Rcheck’
* using R version 3.1.3 (2015-03-09)
* using platform: x86_64-apple-darwin10.8.0 (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 ‘1.4.0’
* 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 ... [3s/6s] 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 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 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 ... [16s/16s] 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

* 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	0.141	0.007	0.148
sCompReorder	1.479	0.025	1.505
sDistance	0.134	0.006	0.140
sDmat	0.223	0.004	0.228
sDmatCluster	0.261	0.006	0.268
sDmatMinima	0.194	0.006	0.200
sHexDist	0.006	0.000	0.006
sHexGrid	0.005	0.000	0.005
sInitial	0.004	0.000	0.005
sMapOverlay	0.286	0.011	0.297
sNeighAny	0.01	0.00	0.01
sNeighDirect	0.009	0.000	0.009
sPipeline	0.411	0.011	0.423
sTopology	0.026	0.009	0.035
sTrainBatch	0.149	0.001	0.151
sTrainSeq	1.059	0.008	1.067
sTrainology	0.006	0.000	0.007
sWriteData	0.238	0.008	0.247
visColoralpha	0.007	0.000	0.008
visColorbar	0.057	0.000	0.058
visColormap	0.008	0.000	0.009
visCompReorder	2.019	0.105	2.126
visDmatCluster	0.376	0.047	0.422
visDmatHeatmap	0.301	0.008	0.318
visHeatmap	0.157	0.004	0.169
visHeatmapAdv	0.692	0.011	0.774
visHexComp	0.161	0.006	0.186
visHexGrid	0.160	0.006	0.166
visHexMapping	2.245	0.087	2.366
visHexMulComp	1.024	0.033	1.066
visHexPattern	1.661	0.092	1.765
visKernels	0.013	0.008	0.023
visTreeBootstrap	0.256	0.007	0.319
visVp	0.033	0.008	0.042