Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-05-31 17:02:56 -0400 (Fri, 31 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4753 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4464 |
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 651/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
EnrichmentBrowser 2.34.1 (landing page) Ludwig Geistlinger
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | |||||||||
To the developers/maintainers of the EnrichmentBrowser package: - 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 Troubleshooting Build Report for more information. - 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. |
Package: EnrichmentBrowser |
Version: 2.34.1 |
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:EnrichmentBrowser.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings EnrichmentBrowser_2.34.1.tar.gz |
StartedAt: 2024-05-31 03:25:39 -0400 (Fri, 31 May 2024) |
EndedAt: 2024-05-31 03:40:54 -0400 (Fri, 31 May 2024) |
EllapsedTime: 915.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: EnrichmentBrowser.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:EnrichmentBrowser.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings EnrichmentBrowser_2.34.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/EnrichmentBrowser.Rcheck’ * using R version 4.4.0 (2024-04-24) * using platform: x86_64-pc-linux-gnu * 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 ‘EnrichmentBrowser/DESCRIPTION’ ... OK * this is package ‘EnrichmentBrowser’ version ‘2.34.1’ * 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 ‘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 code 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 whether startup messages can be suppressed ... 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed ebrowser 498.661 31.876 556.424 getGenesets 13.059 0.512 19.520 eaBrowse 7.913 0.699 8.615 ggeaGraph 4.456 0.820 5.277 * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/home/biocbuild/bbs-3.19-bioc/meat/EnrichmentBrowser.Rcheck/00check.log’ for details.
EnrichmentBrowser.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL EnrichmentBrowser ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’ * 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 * DONE (EnrichmentBrowser)
EnrichmentBrowser.Rcheck/EnrichmentBrowser-Ex.timings
name | user | system | elapsed | |
combResults | 0.468 | 0.032 | 0.500 | |
compileGRN | 4.670 | 0.261 | 4.930 | |
configEBrowser | 0.000 | 0.000 | 0.001 | |
deAna | 3.278 | 0.079 | 3.359 | |
downloadPathways | 0 | 0 | 0 | |
eaBrowse | 7.913 | 0.699 | 8.615 | |
ebrowser | 498.661 | 31.876 | 556.424 | |
getGenesets | 13.059 | 0.512 | 19.520 | |
ggeaGraph | 4.456 | 0.820 | 5.277 | |
idMap | 0.641 | 0.032 | 0.673 | |
import | 3.488 | 0.312 | 3.800 | |
isAvailable | 0 | 0 | 0 | |
makeExampleData | 0.027 | 0.000 | 0.027 | |
nbea | 0.277 | 0.016 | 0.294 | |
normalize | 0.391 | 0.076 | 0.467 | |
plots | 1.281 | 0.128 | 1.409 | |
probe2gene | 0.053 | 0.008 | 0.061 | |
readSE | 0.026 | 0.008 | 0.035 | |
sbea | 0.156 | 0.008 | 0.165 | |