BioC 3.0: CHECK report for supraHex on oaxaca

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 03:45:05 -0700 (Fri, 10 Apr 2015)

EndedAt: 2015-04-10 03:46:02 -0700 (Fri, 10 Apr 2015)

EllapsedTime: 56.9 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-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 ‘1.4.0’
* 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 ... [2s/3s] 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 ... [13s/13s] 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	0.086	0.004	0.091
sCompReorder	1.409	0.019	1.432
sDistance	0.122	0.002	0.125
sDmat	0.182	0.003	0.186
sDmatCluster	0.261	0.004	0.352
sDmatMinima	0.155	0.004	0.159
sHexDist	0.006	0.000	0.006
sHexGrid	0.004	0.001	0.004
sInitial	0.004	0.000	0.004
sMapOverlay	0.251	0.007	0.263
sNeighAny	0.01	0.00	0.01
sNeighDirect	0.009	0.001	0.009
sPipeline	0.409	0.007	0.436
sTopology	0.022	0.006	0.028
sTrainBatch	0.087	0.001	0.088
sTrainSeq	1.016	0.005	1.028
sTrainology	0.006	0.000	0.006
sWriteData	0.228	0.004	0.236
visColoralpha	0.009	0.000	0.008
visColorbar	0.054	0.000	0.055
visColormap	0.007	0.000	0.008
visCompReorder	1.482	0.030	1.530
visDmatCluster	0.367	0.034	0.426
visDmatHeatmap	0.249	0.007	0.313
visHeatmap	0.135	0.002	0.138
visHeatmapAdv	0.655	0.005	0.701
visHexComp	0.142	0.004	0.146
visHexGrid	0.134	0.003	0.137
visHexMapping	1.809	0.049	1.873
visHexMulComp	0.768	0.019	0.789
visHexPattern	1.345	0.057	1.405
visKernels	0.012	0.005	0.017
visTreeBootstrap	0.257	0.003	0.289
visVp	0.037	0.006	0.043