BioC 2.14: CHECK report for supraHex on morelia

Package: supraHex

Version: 1.2.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch supraHex_1.2.0.tar.gz

StartedAt: 2014-10-08 01:51:27 -0700 (Wed, 08 Oct 2014)

EndedAt: 2014-10-08 01:52:19 -0700 (Wed, 08 Oct 2014)

EllapsedTime: 51.4 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_1.2.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-2.14-bioc/meat/supraHex.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-apple-darwin13.1.0 (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 ‘1.2.0’
* 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 loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Package in Depends field not imported from: ‘hexbin’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
See the information on DESCRIPTION files in the chapter ‘Creating R
packages’ of the ‘Writing R Extensions’ manual.
* 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

NOTE: There was 1 note.
See
  ‘/Users/biocbuild/bbs-2.14-bioc/meat/supraHex.Rcheck/00check.log’
for details.

* 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	0.092	0.005	0.096
sCompReorder	2.029	0.038	2.088
sDistance	0.113	0.002	0.114
sDmat	0.150	0.001	0.151
sDmatCluster	0.231	0.005	0.238
sDmatMinima	0.187	0.001	0.188
sHexDist	0.006	0.000	0.006
sHexGrid	0.004	0.000	0.005
sInitial	0.004	0.001	0.005
sMapOverlay	0.233	0.007	0.241
sNeighAny	0.009	0.000	0.010
sNeighDirect	0.006	0.000	0.006
sPipeline	0.381	0.009	0.390
sTopology	0.025	0.005	0.030
sTrainBatch	0.053	0.001	0.054
sTrainSeq	0.979	0.002	0.983
sTrainology	0.004	0.000	0.004
sWriteData	0.269	0.002	0.272
visColoralpha	0.009	0.001	0.009
visColorbar	0.066	0.000	0.067
visColormap	0.008	0.000	0.008
visCompReorder	1.545	0.027	1.580
visDmatCluster	0.245	0.018	0.263
visDmatHeatmap	0.202	0.005	0.206
visHeatmap	0.120	0.001	0.121
visHeatmapAdv	0.635	0.008	0.651
visHexComp	0.136	0.003	0.156
visHexGrid	0.116	0.001	0.117
visHexMapping	1.865	0.060	1.932
visHexMulComp	0.676	0.014	0.690
visHexPattern	1.257	0.062	1.383
visKernels	0.008	0.004	0.012
visTreeBootstrap	0.222	0.004	0.239
visVp	0.027	0.004	0.031