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BioC 3.0: CHECK report for supraHex on oaxaca

This page was generated on 2015-04-10 10:07:49 -0700 (Fri, 10 Apr 2015).

Package 872/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
supraHex 1.4.0
Hai Fang
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/supraHex
Last Changed Rev: 95439 / Revision: 102249
Last Changed Date: 2014-10-13 14:38:33 -0700 (Mon, 13 Oct 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK [ OK ] OK 

Summary

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

Command output

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


* 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

supraHex.Rcheck/00install.out:

* 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)

supraHex.Rcheck/supraHex-Ex.timings:

nameusersystemelapsed
sBMH0.0860.0040.091
sCompReorder1.4090.0191.432
sDistance0.1220.0020.125
sDmat0.1820.0030.186
sDmatCluster0.2610.0040.352
sDmatMinima0.1550.0040.159
sHexDist0.0060.0000.006
sHexGrid0.0040.0010.004
sInitial0.0040.0000.004
sMapOverlay0.2510.0070.263
sNeighAny0.010.000.01
sNeighDirect0.0090.0010.009
sPipeline0.4090.0070.436
sTopology0.0220.0060.028
sTrainBatch0.0870.0010.088
sTrainSeq1.0160.0051.028
sTrainology0.0060.0000.006
sWriteData0.2280.0040.236
visColoralpha0.0090.0000.008
visColorbar0.0540.0000.055
visColormap0.0070.0000.008
visCompReorder1.4820.0301.530
visDmatCluster0.3670.0340.426
visDmatHeatmap0.2490.0070.313
visHeatmap0.1350.0020.138
visHeatmapAdv0.6550.0050.701
visHexComp0.1420.0040.146
visHexGrid0.1340.0030.137
visHexMapping1.8090.0491.873
visHexMulComp0.7680.0190.789
visHexPattern1.3450.0571.405
visKernels0.0120.0050.017
visTreeBootstrap0.2570.0030.289
visVp0.0370.0060.043