Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-12-23 12:06 -0500 (Mon, 23 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4744 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4487 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4515 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4467 |
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 1610/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
ProteoMM 1.24.0 (landing page) Yuliya V Karpievitch
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | |||||||||
To the developers/maintainers of the ProteoMM package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ProteoMM.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: ProteoMM |
Version: 1.24.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:ProteoMM.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings ProteoMM_1.24.0.tar.gz |
StartedAt: 2024-12-20 07:57:04 -0500 (Fri, 20 Dec 2024) |
EndedAt: 2024-12-20 08:01:45 -0500 (Fri, 20 Dec 2024) |
EllapsedTime: 280.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: ProteoMM.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:ProteoMM.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings ProteoMM_1.24.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/ProteoMM.Rcheck’ * using R version 4.4.2 (2024-10-31) * using platform: x86_64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.6 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘ProteoMM/DESCRIPTION’ ... OK * this is package ‘ProteoMM’ version ‘1.24.0’ * 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 ‘ProteoMM’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE License components which are templates and need '+ file LICENSE': MIT * 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 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 ... OK * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed prot_level_multi_part 52.482 0.222 53.188 prot_level_multiMat_PresAbs 18.755 0.112 19.283 subset_proteins 18.426 0.078 18.840 peptideLevel_PresAbsDE 14.857 0.067 15.246 get_presAbs_prots 14.640 0.058 14.820 plot_volcano_wLab 12.019 0.069 12.391 peptideLevel_DE 11.329 0.058 11.595 plot_volcano 11.209 0.052 11.387 MBimpute 10.979 0.101 11.204 eig_norm1 8.741 0.037 8.891 eig_norm2 8.612 0.036 8.749 plot_3_pep_trends_NOfile 7.885 0.035 8.001 * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... 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 ‘/Users/biocbuild/bbs-3.20-bioc/meat/ProteoMM.Rcheck/00check.log’ for details.
ProteoMM.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL ProteoMM ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’ * installing *source* package ‘ProteoMM’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 (ProteoMM)
ProteoMM.Rcheck/ProteoMM-Ex.timings
name | user | system | elapsed | |
MBimpute | 10.979 | 0.101 | 11.204 | |
convert_log2 | 0.011 | 0.004 | 0.015 | |
eig_norm1 | 8.741 | 0.037 | 8.891 | |
eig_norm2 | 8.612 | 0.036 | 8.749 | |
eigen_pi | 0.033 | 0.006 | 0.039 | |
g.test | 0.005 | 0.001 | 0.006 | |
get_presAbs_prots | 14.640 | 0.058 | 14.820 | |
makeLMFormula | 0.001 | 0.001 | 0.001 | |
make_intencities | 0.008 | 0.003 | 0.012 | |
make_meta | 0.008 | 0.002 | 0.011 | |
peptideLevel_DE | 11.329 | 0.058 | 11.595 | |
peptideLevel_PresAbsDE | 14.857 | 0.067 | 15.246 | |
plot_3_pep_trends_NOfile | 7.885 | 0.035 | 8.001 | |
plot_volcano | 11.209 | 0.052 | 11.387 | |
plot_volcano_wLab | 12.019 | 0.069 | 12.391 | |
prot_level_multiMat_PresAbs | 18.755 | 0.112 | 19.283 | |
prot_level_multi_part | 52.482 | 0.222 | 53.188 | |
subset_proteins | 18.426 | 0.078 | 18.840 | |