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CHECK report for supraHex on machv2

This page was generated on 2020-10-17 11:59:44 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE supraHex PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1759/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
supraHex 1.26.0
Hai Fang
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/supraHex
Branch: RELEASE_3_11
Last Commit: dd68e51
Last Changed Date: 2020-04-27 14:35:58 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  NA 
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository

Summary

Package: supraHex
Version: 1.26.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:supraHex.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings supraHex_1.26.0.tar.gz
StartedAt: 2020-10-17 05:44:28 -0400 (Sat, 17 Oct 2020)
EndedAt: 2020-10-17 05:45:44 -0400 (Sat, 17 Oct 2020)
EllapsedTime: 76.0 seconds
RetCode: 0
Status:  OK 
CheckDir: supraHex.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:supraHex.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings supraHex_1.26.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/supraHex.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-apple-darwin17.0 (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 ‘1.26.0’
* 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 ... 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 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


Installation output

supraHex.Rcheck/00install.out

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### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL supraHex
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’
* installing *source* package ‘supraHex’ ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (supraHex)

Tests output


Example timings

supraHex.Rcheck/supraHex-Ex.timings

nameusersystemelapsed
sBMH0.1870.0130.201
sCompReorder1.1190.0981.291
sDistance0.1640.0090.174
sDmat0.2090.0140.222
sDmatCluster0.3180.0250.344
sDmatMinima0.1920.0080.200
sHexDist0.0040.0010.005
sHexGrid0.0030.0010.004
sHexGridVariant0.0020.0020.004
sHexPolygon0.0040.0000.004
sInitial0.0030.0000.002
sMapOverlay0.2660.0230.290
sNeighAny0.0090.0010.010
sNeighDirect0.0050.0000.006
sTopology0.0190.0120.033
sTrainBatch0.0750.0060.081
sTrainSeq0.6330.0200.654
sTrainology0.0050.0010.005
sWriteData0.2340.0110.244
visColoralpha0.0040.0000.004
visColorbar0.0410.0000.042
visColormap0.0060.0000.007
visCompReorder1.0180.1181.137
visDmatCluster0.3300.0530.383
visDmatHeatmap0.3080.0080.316
visHeatmap0.1410.0020.185
visHeatmapAdv0.6810.0090.693
visHexAnimate0.0020.0010.003
visHexBarplot0.4750.0600.539
visHexComp0.1720.0140.187
visHexGrid0.1440.0080.152
visHexMapping1.6460.1281.774
visHexMulComp0.9180.0740.993
visHexPattern1.6470.1891.839
visKernels0.0180.0130.030
visTreeBSclust0.1080.0040.112
visTreeBootstrap0.2310.0050.236
visVp0.0270.0100.037