Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2025-10-13 11:37 -0400 (Mon, 13 Oct 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4833 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4614 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4555 |
kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4586 |
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 57/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
AlphaBeta 1.22.0 (landing page) Yadollah Shahryary Dizaji
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | 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 | ![]() | ||||||||
kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the AlphaBeta package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/AlphaBeta.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: AlphaBeta |
Version: 1.22.0 |
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:AlphaBeta.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings AlphaBeta_1.22.0.tar.gz |
StartedAt: 2025-10-12 20:46:28 -0400 (Sun, 12 Oct 2025) |
EndedAt: 2025-10-12 20:57:03 -0400 (Sun, 12 Oct 2025) |
EllapsedTime: 634.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: AlphaBeta.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:AlphaBeta.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings AlphaBeta_1.22.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/AlphaBeta.Rcheck’ * using R version 4.5.1 (2025-06-13) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0 * running under: Ubuntu 24.04.3 LTS * using session charset: UTF-8 * checking for file ‘AlphaBeta/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘AlphaBeta’ version ‘1.22.0’ * 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 ‘AlphaBeta’ 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 ... NOTE File LICENSE is not mentioned in the DESCRIPTION file. * 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 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 ABplot: no visible binding for global variable ‘delta.t’ ABplot: no visible binding for global variable ‘div.obs’ BOOTmodel : LSE_intercept: no visible binding for global variable ‘sel’ BOOTmodel: no visible binding for global variable ‘sel’ BOOTmodel: multiple local function definitions for ‘divergence’ with different formal arguments plotPedigree: no visible binding for global variable ‘meth’ plotPedigree: no visible binding for global variable ‘V1’ plotPedigree: no visible binding for global variable ‘V2’ Undefined global functions or variables: V1 V2 delta.t div.obs meth sel * 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 BOOTmodel 86.158 0.102 86.270 ABselectUU 81.255 0.142 81.398 ABselectMM 65.215 0.161 65.382 ABneutral 53.949 0.810 54.786 ABselectUUSOMA 5.823 0.040 5.863 ABneutralSOMA 5.419 0.068 5.487 * 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-3.21-bioc/meat/AlphaBeta.Rcheck/00check.log’ for details.
AlphaBeta.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL AlphaBeta ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’ * installing *source* package ‘AlphaBeta’ ... ** this is package ‘AlphaBeta’ version ‘1.22.0’ ** 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 (AlphaBeta)
AlphaBeta.Rcheck/AlphaBeta-Ex.timings
name | user | system | elapsed | |
ABneutral | 53.949 | 0.810 | 54.786 | |
ABneutralSOMA | 5.419 | 0.068 | 5.487 | |
ABnull | 0.008 | 0.000 | 0.008 | |
ABplot | 0.459 | 0.018 | 0.477 | |
ABselectMM | 65.215 | 0.161 | 65.382 | |
ABselectMMSOMA | 4.054 | 0.007 | 4.060 | |
ABselectUU | 81.255 | 0.142 | 81.398 | |
ABselectUUSOMA | 5.823 | 0.040 | 5.863 | |
BOOTmodel | 86.158 | 0.102 | 86.270 | |
FtestRSS | 0.011 | 0.000 | 0.012 | |
buildPedigree | 1.056 | 0.039 | 4.765 | |
dMatrix | 0.123 | 0.029 | 0.151 | |
plotPedigree | 0.068 | 0.003 | 0.071 | |
rc.meth.lvl | 1.125 | 0.004 | 4.743 | |