BioC 3.5: CHECK report for supraHex on toluca2

Package: supraHex

Version: 1.13.3

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings supraHex_1.13.3.tar.gz

StartedAt: 2017-04-23 10:32:46 -0400 (Sun, 23 Apr 2017)

EndedAt: 2017-04-23 10:33:58 -0400 (Sun, 23 Apr 2017)

EllapsedTime: 72.7 seconds

RetCode: 0

Status:  OK

CheckDir: supraHex.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings supraHex_1.13.3.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/supraHex.Rcheck’
* using R Under development (unstable) (2017-02-15 r72187)
* 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 ‘1.13.3’
* 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 ... 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 ... 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	0.408	0.007	0.466
sCompReorder	1.839	0.032	2.130
sDistance	0.122	0.002	0.142
sDmat	0.150	0.003	0.173
sDmatCluster	0.314	0.004	0.334
sDmatMinima	0.177	0.004	0.182
sHexDist	0.004	0.001	0.004
sHexGrid	0.003	0.000	0.003
sHexGridVariant	0.006	0.001	0.006
sHexPolygon	0.003	0.000	0.004
sInitial	0.003	0.000	0.004
sMapOverlay	0.597	0.010	0.686
sNeighAny	0.007	0.001	0.009
sNeighDirect	0.005	0.000	0.007
sPipeline	2.157	0.018	2.471
sTopology	0.021	0.006	0.034
sTrainBatch	0.052	0.001	0.055
sTrainSeq	0.480	0.002	0.548
sTrainology	0.006	0.000	0.006
sWriteData	0.387	0.003	0.445
visColoralpha	0.007	0.000	0.008
visColorbar	0.052	0.000	0.060
visColormap	0.006	0.000	0.007
visCompReorder	1.268	0.038	1.516
visDmatCluster	0.376	0.032	0.458
visDmatHeatmap	0.248	0.003	0.286
visHeatmap	0.125	0.002	0.142
visHeatmapAdv	1.459	0.007	1.664
visHexAnimate	0.002	0.000	0.003
visHexBarplot	0.783	0.027	0.915
visHexComp	0.138	0.001	0.166
visHexGrid	0.141	0.003	0.159
visHexMapping	1.527	0.049	1.791
visHexMulComp	0.950	0.034	1.018
visHexPattern	1.896	0.084	2.194
visKernels	0.012	0.005	0.017
visTreeBSclust	1.321	0.004	1.509
visTreeBootstrap	1.103	0.004	1.271
visVp	0.030	0.006	0.042