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CHECK report for aracne.networks on malbec2

This page was generated on 2021-01-14 15:58:57 -0500 (Thu, 14 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE aracne.networks PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 17/385HostnameOS / ArchINSTALLBUILDCHECK
aracne.networks 1.17.0
Federico M. Giorgi , Mariano Alvarez
Snapshot Date: 2021-01-14 09:00:13 -0500 (Thu, 14 Jan 2021)
URL: https://git.bioconductor.org/packages/aracne.networks
Branch: master
Last Commit: 0719873
Last Changed Date: 2020-10-27 10:20:54 -0500 (Tue, 27 Oct 2020)
malbec2 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK [ WARNINGS ]UNNEEDED, same version exists in internal repository
riesling1 Windows Server 2019 Standard / x64  OK  OK  WARNINGS 

Summary

Package: aracne.networks
Version: 1.17.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:aracne.networks.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings aracne.networks_1.17.0.tar.gz
StartedAt: 2021-01-14 11:42:02 -0500 (Thu, 14 Jan 2021)
EndedAt: 2021-01-14 11:50:24 -0500 (Thu, 14 Jan 2021)
EllapsedTime: 501.4 seconds
RetCode: 0
Status:  WARNINGS 
CheckDir: aracne.networks.Rcheck
Warnings: 1

Command output

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###
### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:aracne.networks.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings aracne.networks_1.17.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-data-experiment/meat/aracne.networks.Rcheck’
* using R Under development (unstable) (2021-01-05 r79797)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘aracne.networks/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘aracne.networks’ version ‘1.17.0’
* 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 ... NOTE
Found the following hidden files and directories:
  .git_fetch_output.txt
  .git_merge_output.txt
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘aracne.networks’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 203.3Mb
  sub-directories of 1Mb or more:
    data  203.1Mb
* 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 ... WARNING
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                  old_size new_size compress
  regulonblca.rda    8.2Mb    6.9Mb       xz
  regulonbrca.rda    5.7Mb    4.7Mb       xz
  reguloncesc.rda    9.6Mb    8.0Mb       xz
  reguloncoad.rda    7.0Mb    5.8Mb       xz
  regulonesca.rda    8.7Mb    7.0Mb       xz
  regulongbm.rda     9.2Mb    7.1Mb       xz
  regulonhnsc.rda    7.2Mb    6.0Mb       xz
  regulonkirc.rda    5.9Mb    4.9Mb       xz
  regulonkirp.rda    7.8Mb    6.5Mb       xz
  regulonlaml.rda    8.8Mb    7.0Mb       xz
  regulonlihc.rda    8.0Mb    6.7Mb       xz
  regulonluad.rda    6.8Mb    5.7Mb       xz
  regulonlusc.rda    7.7Mb    6.5Mb       xz
  regulonnet.rda    12.1Mb   10.1Mb       xz
  regulonov.rda     10.5Mb    8.6Mb       xz
  regulonpaad.rda    8.7Mb    7.1Mb       xz
  regulonpcpg.rda    9.9Mb    7.8Mb       xz
  regulonprad.rda    5.6Mb    4.7Mb       xz
  regulonread.rda    9.4Mb    7.6Mb       xz
  regulonsarc.rda    8.8Mb    7.2Mb       xz
  regulonstad.rda    9.7Mb    8.1Mb       xz
  regulontgct.rda    7.7Mb    6.3Mb       xz
  regulonthca.rda    5.2Mb    4.3Mb       xz
  regulonthym.rda    6.7Mb    5.3Mb       xz
  regulonucec.rda    8.2Mb    6.9Mb       xz
* 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: 1 WARNING, 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.13-data-experiment/meat/aracne.networks.Rcheck/00check.log’
for details.



Installation output

aracne.networks.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL aracne.networks
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’
* installing *source* package ‘aracne.networks’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** 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 (aracne.networks)

Tests output


Example timings

aracne.networks.Rcheck/aracne.networks-Ex.timings

nameusersystemelapsed
aracne.networks-package2.2660.0442.310
regulonblca2.4380.0122.450
regulonbrca1.5090.0151.526
reguloncesc2.6030.0192.623
reguloncoad2.4370.0162.454
regulonesca2.6120.0072.620
regulongbm2.0420.0092.050
regulonhnsc2.1090.0002.109
regulonkirc1.5650.0041.568
regulonkirp2.3620.0002.362
regulonlaml2.5400.0152.556
regulonlihc2.0860.0092.093
regulonluad2.3260.0072.334
regulonlusc1.8710.0041.875
regulonnet3.3330.0283.361
regulonov3.0560.0243.080
regulonpaad2.4010.0072.409
regulonpcpg2.6710.0172.686
regulonprad1.5010.0111.513
regulonread3.3010.0053.305
regulonsarc2.1500.0072.158
regulonstad2.6580.0052.661
regulontgct2.4940.0002.493
regulonthca1.2610.0031.266
regulonthym2.0570.0072.065
regulonucec1.8420.0001.842
write.regulon1.8260.0121.837