Back to Multiple platform build/check report for BioC 3.13
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This page was generated on 2021-10-15 15:05:47 -0400 (Fri, 15 Oct 2021).

CHECK results for pageRank on nebbiolo1

To the developers/maintainers of the pageRank package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/pageRank.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1336/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
pageRank 1.2.0  (landing page)
Hongxu Ding
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/pageRank
git_branch: RELEASE_3_13
git_last_commit: a54ad76
git_last_commit_date: 2021-05-19 12:55:43 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: pageRank
Version: 1.2.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:pageRank.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings pageRank_1.2.0.tar.gz
StartedAt: 2021-10-14 10:55:10 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 11:00:54 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 344.5 seconds
RetCode: 0
Status:   OK  
CheckDir: pageRank.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:pageRank.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings pageRank_1.2.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/pageRank.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘pageRank/DESCRIPTION’ ... OK
* this is package ‘pageRank’ version ‘1.2.0’
* package encoding: UTF-8
* 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 ‘pageRank’ 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 ... NOTE
accessibility_network : <anonymous>: no visible global function
  definition for ‘name’
Undefined global functions or variables:
  name
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                        user system elapsed
accessibility_network 11.099  1.029  12.158
conformation_network   8.726  0.515   9.243
* 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 NOTE
See
  ‘/home/biocbuild/bbs-3.13-bioc/meat/pageRank.Rcheck/00check.log’
for details.



Installation output

pageRank.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL pageRank
###
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##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’
* installing *source* package ‘pageRank’ ...
** using staged installation
** R
** 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 (pageRank)

Tests output


Example timings

pageRank.Rcheck/pageRank-Ex.timings

nameusersystemelapsed
P_graph2.4680.0602.532
P_null1.2810.0431.325
accessibility_network11.099 1.02912.158
adjust_graph0.0260.0080.034
aracne_network1.2660.1601.425
bubble_plot0.0000.0060.007
clean_graph0.0280.0050.032
conformation_network8.7260.5159.243
diff_graph0.0790.0000.079
get_color_gradient0.0000.0010.001
multiplex_page_rank0.0310.0030.033
time_expmat0.0000.0010.001