Back to Build/check report for BioC 3.18 experimental data
[A]BCDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2024-03-28 14:52:05 -0400 (Thu, 28 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4669
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 15/429HostnameOS / ArchINSTALLBUILDCHECK
aracne.networks 1.28.0  (landing page)
Federico M. Giorgi , Mariano Alvarez
Snapshot Date: 2024-03-28 07:30:02 -0400 (Thu, 28 Mar 2024)
git_url: https://git.bioconductor.org/packages/aracne.networks
git_branch: RELEASE_3_18
git_last_commit: 3c3a4fb
git_last_commit_date: 2023-10-24 09:14:58 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published

CHECK results for aracne.networks on nebbiolo2


To the developers/maintainers of the aracne.networks package:
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: aracne.networks
Version: 1.28.0
Command: /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD check --install=check:aracne.networks.install-out.txt --library=/home/biocbuild/bbs-3.18-bioc/R/site-library --timings aracne.networks_1.28.0.tar.gz
StartedAt: 2024-03-28 11:02:17 -0400 (Thu, 28 Mar 2024)
EndedAt: 2024-03-28 11:12:29 -0400 (Thu, 28 Mar 2024)
EllapsedTime: 612.9 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: aracne.networks.Rcheck
Warnings: 2

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD check --install=check:aracne.networks.install-out.txt --library=/home/biocbuild/bbs-3.18-bioc/R/site-library --timings aracne.networks_1.28.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.18-data-experiment/meat/aracne.networks.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘aracne.networks/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘aracne.networks’ version ‘1.28.0’
* 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 ‘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 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 LazyData ... WARNING
  LazyData DB of 203.1 MB without LazyDataCompression set
  See §1.1.6 of 'Writing R Extensions'
* 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 ...
  ‘aracne.networks.Rnw’... OK
 OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 WARNINGs, 1 NOTE
See
  ‘/home/biocbuild/bbs-3.18-data-experiment/meat/aracne.networks.Rcheck/00check.log’
for details.



Installation output

aracne.networks.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD INSTALL aracne.networks
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.18-bioc/R/site-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-package2.7260.0522.777
regulonblca2.3720.1122.483
regulonbrca1.4000.0291.429
reguloncesc2.6620.0322.694
reguloncoad2.1950.0552.251
regulonesca2.3990.0172.415
regulongbm2.6070.0202.627
regulonhnsc2.2660.0482.314
regulonkirc1.7380.0201.758
regulonkirp1.7820.0041.786
regulonlaml2.5010.0122.513
regulonlihc1.8190.0121.832
regulonluad2.1830.0802.263
regulonlusc2.0690.0082.077
regulonnet3.1740.0203.194
regulonov2.8580.0272.885
regulonpaad2.2180.0212.238
regulonpcpg2.2780.0282.306
regulonprad2.2380.0152.254
regulonread2.3160.0122.328
regulonsarc2.5990.0042.603
regulonstad2.5440.0242.568
regulontgct1.8150.0371.850
regulonthca1.9050.0111.917
regulonthym2.2540.0362.290
regulonucec1.8620.0001.862
write.regulon1.8100.0031.815