BioC 3.1: CHECK report for supraHex on petty

Package: supraHex

Version: 1.6.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings supraHex_1.6.0.tar.gz

StartedAt: 2015-10-09 02:17:29 -0700 (Fri, 09 Oct 2015)

EndedAt: 2015-10-09 02:18:37 -0700 (Fri, 09 Oct 2015)

EllapsedTime: 68.1 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_1.6.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.1-bioc/meat/supraHex.Rcheck’
* using R version 3.2.2 Patched (2015-08-14 r69078)
* 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 ‘1.6.0’
* 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/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 ... [16s/17s] 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	0.076	0.005	0.082
sCompReorder	1.256	0.013	1.270
sDistance	0.133	0.005	0.137
sDmat	0.219	0.004	0.223
sDmatCluster	0.379	0.006	0.393
sDmatMinima	0.237	0.004	0.241
sHexDist	0.006	0.000	0.007
sHexGrid	0.008	0.000	0.007
sInitial	0.007	0.001	0.007
sMapOverlay	0.330	0.016	0.345
sNeighAny	0.011	0.001	0.012
sNeighDirect	0.007	0.001	0.007
sPipeline	0.479	0.011	0.490
sTopology	0.024	0.008	0.032
sTrainBatch	0.069	0.000	0.070
sTrainSeq	0.679	0.009	0.689
sTrainology	0.008	0.000	0.007
sWriteData	0.299	0.008	0.308
visColoralpha	0.007	0.000	0.007
visColorbar	0.048	0.001	0.049
visColormap	0.007	0.002	0.007
visCompReorder	1.761	0.115	1.876
visDmatCluster	0.463	0.066	0.528
visDmatHeatmap	0.367	0.010	0.378
visHeatmap	0.191	0.002	0.194
visHeatmapAdv	0.805	0.009	0.817
visHexComp	0.205	0.005	0.212
visHexGrid	0.205	0.005	0.211
visHexMapping	2.594	0.113	2.710
visHexMulComp	1.007	0.032	1.039
visHexPattern	1.861	0.100	2.037
visKernels	0.017	0.009	0.027
visTreeBootstrap	0.304	0.007	0.324
visVp	0.044	0.010	0.055