Back to Multiple platform build/check report for BioC 3.18: simplified long |
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This page was generated on 2024-03-04 11:37:30 -0500 (Mon, 04 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.3.2 Patched (2023-11-13 r85521) -- "Eye Holes" | 4692 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.2 (2023-10-31 ucrt) -- "Eye Holes" | 4445 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.3.2 Patched (2023-11-01 r85457) -- "Eye Holes" | 4466 |
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 1134/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
MAGeCKFlute 2.6.0 (landing page) Wubing Zhang
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
To the developers/maintainers of the MAGeCKFlute package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MAGeCKFlute.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: MAGeCKFlute |
Version: 2.6.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MAGeCKFlute.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MAGeCKFlute_2.6.0.tar.gz |
StartedAt: 2024-03-03 21:32:07 -0500 (Sun, 03 Mar 2024) |
EndedAt: 2024-03-03 21:37:07 -0500 (Sun, 03 Mar 2024) |
EllapsedTime: 300.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: MAGeCKFlute.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MAGeCKFlute.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MAGeCKFlute_2.6.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/MAGeCKFlute.Rcheck’ * using R version 4.3.2 Patched (2023-11-01 r85457) * using platform: x86_64-apple-darwin20 (64-bit) * R was compiled by Apple clang version 14.0.3 (clang-1403.0.22.14.1) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘MAGeCKFlute/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘MAGeCKFlute’ version ‘2.6.0’ * 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 ‘MAGeCKFlute’ can be installed ... OK * checking installed package size ... NOTE installed size is 20.7Mb sub-directories of 1Mb or more: extdata 20.3Mb * 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 EnrichedFilter: no visible global function definition for ‘is’ EnrichedGeneView: no visible global function definition for ‘is’ EnrichedView: no visible global function definition for ‘is’ EnrichedView: no visible global function definition for ‘slot’ enrich.HGT: no visible global function definition for ‘new’ Undefined global functions or variables: is new slot Consider adding importFrom("methods", "is", "new", "slot") to your NAMESPACE file (and ensure that your DESCRIPTION Imports field contains 'methods'). * 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 MAView 9.905 0.337 10.321 enrich.ORT 4.828 0.182 5.048 * 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/meat/MAGeCKFlute.Rcheck/00check.log’ for details.
MAGeCKFlute.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL MAGeCKFlute ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library’ * installing *source* package ‘MAGeCKFlute’ ... ** 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 (MAGeCKFlute)
MAGeCKFlute.Rcheck/MAGeCKFlute-Ex.timings
name | user | system | elapsed | |
BarView | 0.203 | 0.010 | 0.215 | |
BatchRemove | 3.679 | 0.123 | 3.824 | |
ConsistencyView | 0.958 | 0.064 | 1.029 | |
CutoffCalling | 0.003 | 0.000 | 0.003 | |
DensityDiffView | 1.086 | 0.032 | 1.127 | |
DensityView | 1.009 | 0.052 | 1.069 | |
EnrichAnalyzer | 0.014 | 0.002 | 0.016 | |
EnrichedFilter | 0.012 | 0.001 | 0.014 | |
EnrichedGeneView | 0.013 | 0.001 | 0.014 | |
EnrichedView | 0.014 | 0.001 | 0.016 | |
FluteMLE | 0.001 | 0.001 | 0.002 | |
FluteRRA | 0.002 | 0.002 | 0.004 | |
HeatmapView | 0.434 | 0.018 | 0.460 | |
IdentBarView | 0.151 | 0.004 | 0.157 | |
IncorporateDepmap | 0.281 | 0.016 | 0.308 | |
MAView | 9.905 | 0.337 | 10.321 | |
MapRatesView | 0.458 | 0.008 | 0.469 | |
NormalizeBeta | 0.915 | 0.035 | 0.970 | |
OmitCommonEssential | 0 | 0 | 0 | |
RankView | 0.718 | 0.044 | 0.769 | |
ReadBeta | 0.399 | 0.015 | 0.433 | |
ReadRRA | 0.269 | 0.016 | 0.288 | |
ReadsgRRA | 0.015 | 0.001 | 0.017 | |
ResembleDepmap | 0.227 | 0.004 | 0.232 | |
ScatterView | 3.440 | 0.150 | 3.625 | |
Selector | 0.670 | 0.014 | 0.688 | |
SquareView | 1.113 | 0.058 | 1.190 | |
TransGeneID | 2.204 | 0.046 | 2.265 | |
ViolinView | 1.584 | 0.049 | 1.647 | |
VolcanoView | 1.754 | 0.083 | 1.865 | |
arrangePathview | 0.479 | 0.016 | 0.499 | |
enrich.GSE | 0.014 | 0.001 | 0.014 | |
enrich.HGT | 2.890 | 0.075 | 2.985 | |
enrich.ORT | 4.828 | 0.182 | 5.048 | |
getCols | 0.006 | 0.001 | 0.007 | |
getGeneAnn | 0.000 | 0.000 | 0.001 | |
getOrg | 0.001 | 0.000 | 0.001 | |
getOrtAnn | 0 | 0 | 0 | |
gsGetter | 0.399 | 0.017 | 0.419 | |
hclustView | 0.491 | 0.024 | 0.520 | |
loadDepmap | 0 | 0 | 0 | |
normalize.loess | 1.104 | 0.041 | 1.160 | |
sgRankView | 0.197 | 0.003 | 0.202 | |
writeGMT | 0.032 | 0.003 | 0.036 | |