| Back to Mac ARM64 build report for BioC 3.18 |
|
This page was generated on 2024-04-18 11:32:09 -0400 (Thu, 18 Apr 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson1 | macOS 13.6.1 Ventura | arm64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4388 |
| 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 641/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| EnrichmentBrowser 2.32.0 (landing page) Ludwig Geistlinger
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | OK | OK | OK | OK | ||||||||
|
To the developers/maintainers of the EnrichmentBrowser 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. |
| Package: EnrichmentBrowser |
| Version: 2.32.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:EnrichmentBrowser.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings EnrichmentBrowser_2.32.0.tar.gz |
| StartedAt: 2024-04-17 12:51:10 -0400 (Wed, 17 Apr 2024) |
| EndedAt: 2024-04-17 12:58:26 -0400 (Wed, 17 Apr 2024) |
| EllapsedTime: 435.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: EnrichmentBrowser.Rcheck |
| Warnings: 0 |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:EnrichmentBrowser.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings EnrichmentBrowser_2.32.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/EnrichmentBrowser.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: aarch64-apple-darwin20 (64-bit)
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.6.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘EnrichmentBrowser/DESCRIPTION’ ... OK
* this is package ‘EnrichmentBrowser’ version ‘2.32.0’
* 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 ‘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 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 87.532 23.238 111.162
getGenesets 13.549 0.581 19.145
eaBrowse 10.264 0.831 11.198
ggeaGraph 5.102 0.066 5.177
compileGRN 4.817 0.209 5.487
* 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
‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/EnrichmentBrowser.Rcheck/00check.log’
for details.
EnrichmentBrowser.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL EnrichmentBrowser ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/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 | 1.363 | 0.023 | 1.386 | |
| compileGRN | 4.817 | 0.209 | 5.487 | |
| configEBrowser | 0.001 | 0.001 | 0.001 | |
| deAna | 4.473 | 0.184 | 4.680 | |
| downloadPathways | 0.000 | 0.001 | 0.000 | |
| eaBrowse | 10.264 | 0.831 | 11.198 | |
| ebrowser | 87.532 | 23.238 | 111.162 | |
| getGenesets | 13.549 | 0.581 | 19.145 | |
| ggeaGraph | 5.102 | 0.066 | 5.177 | |
| idMap | 1.028 | 0.191 | 1.226 | |
| import | 4.497 | 0.138 | 4.644 | |
| isAvailable | 0 | 0 | 0 | |
| makeExampleData | 0.028 | 0.001 | 0.029 | |
| nbea | 0.281 | 0.009 | 0.290 | |
| normalize | 0.434 | 0.061 | 0.495 | |
| plots | 1.513 | 0.131 | 1.645 | |
| probe2gene | 0.068 | 0.002 | 0.069 | |
| readSE | 0.036 | 0.002 | 0.037 | |
| sbea | 0.187 | 0.004 | 0.192 | |