Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-08-15 12:12 -0400 (Fri, 15 Aug 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4818 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" | 4554 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4595 |
kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4537 |
taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4535 |
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 1338/2317 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
MotifPeeker 1.1.3 (landing page) Hiranyamaya Dash
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | ... NOT SUPPORTED ... | ||||||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | TIMEOUT | ||||||||||
To the developers/maintainers of the MotifPeeker package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MotifPeeker.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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
Package: MotifPeeker |
Version: 1.1.3 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:MotifPeeker.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings MotifPeeker_1.1.3.tar.gz |
StartedAt: 2025-08-15 08:39:23 -0000 (Fri, 15 Aug 2025) |
EndedAt: 2025-08-15 09:19:24 -0000 (Fri, 15 Aug 2025) |
EllapsedTime: 2400.8 seconds |
RetCode: None |
Status: TIMEOUT |
CheckDir: MotifPeeker.Rcheck |
Warnings: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:MotifPeeker.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings MotifPeeker_1.1.3.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/MotifPeeker.Rcheck’ * using R version 4.5.0 (2025-04-11) * using platform: aarch64-unknown-linux-gnu * R was compiled by aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0 GNU Fortran (GCC) 14.2.0 * running under: openEuler 24.03 (LTS) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘MotifPeeker/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘MotifPeeker’ version ‘1.1.3’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... INFO Imports includes 25 non-default packages. Importing from so many packages makes the package vulnerable to any of them becoming unavailable. Move as many as possible to Suggests and use conditionally. * 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 ‘MotifPeeker’ 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 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 ... NOTE Non-topic package-anchored link(s) in Rd file 'pipe.Rd': ‘[magrittr:pipe]{%>%}’ See section 'Cross-references' in the 'Writing R Extensions' manual. * 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 data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... ERROR Running examples in ‘MotifPeeker-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: check_ENCODE > ### Title: Check for ENCODE input > ### Aliases: check_ENCODE > > ### ** Examples > > if (requireNamespace("curl", quietly = TRUE) && + requireNamespace("jsonlite", quietly = TRUE)) { + check_ENCODE("ENCFF920TXI", expect_format = c("bed", "gz")) + } Error: attempt to write a readonly database Execution halted Error while shutting down parallel: unable to terminate some child processes Examples with CPU (user + system) or elapsed time > 5s user system elapsed MotifPeeker 87.862 8.963 95.889 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’
MotifPeeker.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL MotifPeeker ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0/site-library’ * installing *source* package ‘MotifPeeker’ ... ** this is package ‘MotifPeeker’ version ‘1.1.3’ ** using staged installation ** R ** data ** 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 (MotifPeeker)
MotifPeeker.Rcheck/tests/testthat.Rout
R version 4.5.0 (2025-04-11) -- "How About a Twenty-Six" Copyright (C) 2025 The R Foundation for Statistical Computing Platform: aarch64-unknown-linux-gnu R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > desc_path <- list.files("../","^DESCRIPTION$", + full.names = TRUE, recursive = TRUE)[1] > pkg <- read.dcf(desc_path, fields = "Package")[1] > library(testthat) > library(pkg, character.only = TRUE) > > test_check(pkg) [WARNING] This document format requires a nonempty <title> element. Defaulting to 'MotifPeeker.knit' as the title. To specify a title, use 'title' in metadata or --metadata title="...". [WARNING] This document format requires a nonempty <title> element. Defaulting to 'MotifPeeker.knit' as the title. To specify a title, use 'title' in metadata or --metadata title="...". [WARNING] This document format requires a nonempty <title> element. Defaulting to 'MotifPeeker.knit' as the title. To specify a title, use 'title' in metadata or --metadata title="...". Warning: p-values will be inaccurate if primary and control Warning: p-values will be inaccurate if primary and control
MotifPeeker.Rcheck/MotifPeeker-Ex.timings
name | user | system | elapsed | |
MotifPeeker | 87.862 | 8.963 | 95.889 | |
bpapply | 0.020 | 0.124 | 0.151 | |
calc_frip | 0.109 | 0.065 | 0.484 | |