Back to Multiple platform build/check report for BioC 3.16
ABCD[E]FGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2022-06-24 11:06:24 -0400 (Fri, 24 Jun 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.2.0 Patched (2022-06-02 r82447) -- "Vigorous Calisthenics" 4331
palomino4Windows Server 2022 Datacenterx644.2.0 Patched (2022-06-02 r82447 ucrt) -- "Vigorous Calisthenics" 4136
lconwaymacOS 12.2.1 Montereyx86_644.2.0 Patched (2022-05-29 r82424) -- "Vigorous Calisthenics" 4147
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

CHECK results for EnrichmentBrowser on palomino4


To the developers/maintainers of the EnrichmentBrowser package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/EnrichmentBrowser.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? 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 593/2118HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
EnrichmentBrowser 2.27.0  (landing page)
Ludwig Geistlinger
Snapshot Date: 2022-06-23 14:00:04 -0400 (Thu, 23 Jun 2022)
git_url: https://git.bioconductor.org/packages/EnrichmentBrowser
git_branch: master
git_last_commit: 166f089
git_last_commit_date: 2022-04-26 11:21:31 -0400 (Tue, 26 Apr 2022)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.2.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: EnrichmentBrowser
Version: 2.27.0
Command: F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:EnrichmentBrowser.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings EnrichmentBrowser_2.27.0.tar.gz
StartedAt: 2022-06-24 01:22:39 -0400 (Fri, 24 Jun 2022)
EndedAt: 2022-06-24 01:28:14 -0400 (Fri, 24 Jun 2022)
EllapsedTime: 334.6 seconds
RetCode: 0
Status:   OK  
CheckDir: EnrichmentBrowser.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:EnrichmentBrowser.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings EnrichmentBrowser_2.27.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.16-bioc/meat/EnrichmentBrowser.Rcheck'
* using R version 4.2.0 Patched (2022-06-02 r82447 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'EnrichmentBrowser/DESCRIPTION' ... OK
* this is package 'EnrichmentBrowser' version '2.27.0'
* 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 whether package 'EnrichmentBrowser' 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 ... NOTE
Unexported object imported by a ':::' call: 'pathview:::parseKGML2Graph2'
  See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.getGOFromBiomart: no visible binding for global variable
  'go_linkage_type'
Undefined global functions or variables:
  go_linkage_type
* 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 sizes of PDF files under 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
ebrowser    78.37  13.66   92.08
getGenesets 11.11   0.45   17.31
eaBrowse     9.38   1.36   10.95
* 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: 2 NOTEs
See
  'F:/biocbuild/bbs-3.16-bioc/meat/EnrichmentBrowser.Rcheck/00check.log'
for details.



Installation output

EnrichmentBrowser.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.16/bioc/src/contrib/EnrichmentBrowser_2.27.0.tar.gz && rm -rf EnrichmentBrowser.buildbin-libdir && mkdir EnrichmentBrowser.buildbin-libdir && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=EnrichmentBrowser.buildbin-libdir EnrichmentBrowser_2.27.0.tar.gz && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL EnrichmentBrowser_2.27.0.zip && rm EnrichmentBrowser_2.27.0.tar.gz EnrichmentBrowser_2.27.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  329k  100  329k    0     0  3873k      0 --:--:-- --:--:-- --:--:-- 3919k
only one architecture so ignoring '--merge-multiarch'
* installing *source* package 'EnrichmentBrowser' ...
** using staged installation
** R
** 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
* MD5 sums
packaged installation of 'EnrichmentBrowser' as EnrichmentBrowser_2.27.0.zip
* DONE (EnrichmentBrowser)
* installing to library 'F:/biocbuild/bbs-3.16-bioc/R/library'
package 'EnrichmentBrowser' successfully unpacked and MD5 sums checked

Tests output


Example timings

EnrichmentBrowser.Rcheck/EnrichmentBrowser-Ex.timings

nameusersystemelapsed
combResults1.140.031.17
compileGRN3.530.253.78
configEBrowser000
deAna3.790.474.27
downloadPathways000
eaBrowse 9.38 1.3610.95
ebrowser78.3713.6692.08
getGenesets11.11 0.4517.31
ggeaGraph3.970.034.00
idMap0.820.451.27
import4.250.134.37
isAvailable000
makeExampleData0.030.000.04
nbea0.260.000.26
normalize0.500.120.63
plots1.380.191.56
probe2gene0.060.000.06
readSE0.030.020.05
sbea0.200.010.22