Back to Multiple platform build/check report for BioC 3.9 experimental data

CHECK report for yeastGSData on malbec2

This page was generated on 2019-10-17 16:51:22 -0400 (Thu, 17 Oct 2019).

Package 366/371HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
yeastGSData 0.22.0
R. Gentleman
Snapshot Date: 2019-10-17 09:00:12 -0400 (Thu, 17 Oct 2019)
URL: https://git.bioconductor.org/packages/yeastGSData
Branch: RELEASE_3_9
Last Commit: 2cd2165
Last Changed Date: 2019-05-02 11:56:17 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK [ WARNINGS ]UNNEEDED, same version exists in internal repository

Summary

Package: yeastGSData
Version: 0.22.0
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:yeastGSData.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings yeastGSData_0.22.0.tar.gz
StartedAt: 2019-10-17 13:55:42 -0400 (Thu, 17 Oct 2019)
EndedAt: 2019-10-17 13:57:17 -0400 (Thu, 17 Oct 2019)
EllapsedTime: 94.2 seconds
RetCode: 0
Status:  WARNINGS 
CheckDir: yeastGSData.Rcheck
Warnings: 1

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:yeastGSData.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings yeastGSData_0.22.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.9-data-experiment/meat/yeastGSData.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘yeastGSData/DESCRIPTION’ ... OK
* this is package ‘yeastGSData’ version ‘0.22.0’
* 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 ‘yeastGSData’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 65.2Mb
  sub-directories of 1Mb or more:
    extdata  64.2Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... 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 Rd files ... NOTE
prepare_Rd: BayesFactorNGS.Rd:24-25: Dropping empty section \source
prepare_Rd: BayesFactorNGS.Rd:26-27: Dropping empty section \references
prepare_Rd: BayesFactorPGS.Rd:24-25: Dropping empty section \source
prepare_Rd: BayesFactorPGS.Rd:26-27: Dropping empty section \references
* 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 ... WARNING
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                     old_size new_size compress
  BayesFactorNGS.rda     46Kb     18Kb       xz
  BayesFactorPGS.rda     70Kb     32Kb       xz
  MIPSGS.rda             15Kb      9Kb       xz
  Mpact.rda             199Kb    136Kb    bzip2
  NEGGS.rda             600Kb     40Kb       xz
* checking examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.9-data-experiment/meat/yeastGSData.Rcheck/00check.log’
for details.



Installation output

yeastGSData.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL yeastGSData
###
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘yeastGSData’ ...
** using staged installation
** data
** inst
** help
*** installing help indices
** building package indices
** 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 (yeastGSData)

Tests output


Example timings

yeastGSData.Rcheck/yeastGSData-Ex.timings

nameusersystemelapsed
BayesFactorNGS0.0110.0030.015
BayesFactorPGS0.0060.0000.006
BinaryGS0.0020.0000.002
MIPSGS0.0110.0000.011
Mpact0.0420.0000.042
MpactEvidenceCodes0.0010.0000.001
NEGGS3.3440.0883.432
POSPS0.0020.0000.002
PRS0.0010.0000.001