Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-08-21 11:41 -0400 (Wed, 21 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4703 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4440 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4472 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4421 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4414 |
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 1176/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
memes 1.13.0 (landing page) Spencer Nystrom
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | ![]() | ||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | WARNINGS | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
To the developers/maintainers of the memes package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/memes.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: memes |
Version: 1.13.0 |
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:memes.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings memes_1.13.0.tar.gz |
StartedAt: 2024-08-21 02:24:58 -0400 (Wed, 21 Aug 2024) |
EndedAt: 2024-08-21 02:27:27 -0400 (Wed, 21 Aug 2024) |
EllapsedTime: 148.4 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: memes.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:memes.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings memes_1.13.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/memes.Rcheck' * using R version 4.4.1 (2024-06-14 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'memes/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'memes' version '1.13.0' * 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 whether package 'memes' 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 dependencies in R code ... OK * checking S3 generic/method consistency ... WARNING motif_input: function(x, ...) motif_input.universalmotif_df: function(input, path) motif_input: function(x, ...) motif_input.universalmotif: function(input, path) motif_input: function(x, ...) motif_input.list: function(input, path) motif_input: function(x, ...) motif_input.character: function(input, path) motif_input: function(x, ...) motif_input.data.frame: function(input, path) sequence_input: function(x) sequence_input.DNAStringSet: function(input) sequence_input: function(x) sequence_input.character: function(input) sequence_input: function(x) sequence_input.BStringSet: function(input) sequence_input: function(x) sequence_input.AAStringSet: function(input) See section 'Generic functions and methods' in the 'Writing R Extensions' manual. * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... NOTE checkRd: (-1) runTomTom.Rd:51: Lost braces; missing escapes or markup? 51 | \item{...}{additional flags passed to tomtom using {cmdfun} formating (see table below for details)} | ^ * 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 add_sequence 8.1 0.37 8.55 * 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 WARNING, 1 NOTE See 'F:/biocbuild/bbs-3.20-bioc/meat/memes.Rcheck/00check.log' for details.
memes.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL memes ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-bioc/R/library' * installing *source* package 'memes' ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (memes)
memes.Rcheck/memes-Ex.timings
name | user | system | elapsed | |
add_sequence | 8.10 | 0.37 | 8.55 | |
ame_compare_heatmap_methods | 2.04 | 0.11 | 2.17 | |
check_meme_install | 0.53 | 0.19 | 0.72 | |
drop_best_match | 0.02 | 0.00 | 0.01 | |
example_ame | 0.06 | 0.01 | 0.08 | |
example_ame_large | 0.04 | 0.02 | 0.06 | |
force_best_match | 0.1 | 0.0 | 0.1 | |
get_sequence | 0.55 | 0.06 | 0.69 | |
has_duplicate_motifs | 0.21 | 0.03 | 0.25 | |
importAme | 0.32 | 0.06 | 0.36 | |
importDremeXML | 0.22 | 0.00 | 0.21 | |
importFimo | 0.07 | 0.00 | 0.10 | |
importMeme | 0.11 | 0.00 | 0.12 | |
importStremeXML | 0.22 | 0.00 | 0.22 | |
importTomTomXML | 0.39 | 0.00 | 0.39 | |
meme_is_installed | 0.06 | 0.02 | 0.08 | |
nest_tomtom | 0.08 | 0.00 | 0.07 | |
plot_ame_heatmap | 0.63 | 0.03 | 0.66 | |
plot_sequence_heatmap | 3.76 | 0.03 | 3.86 | |
remove_duplicate_motifs | 0 | 0 | 0 | |
runAme | 0.08 | 0.01 | 0.09 | |
runDreme | 0.05 | 0.00 | 0.05 | |
runFimo | 0.05 | 0.02 | 0.06 | |
runMeme | 0.06 | 0.00 | 0.07 | |
runTomTom | 0.08 | 0.00 | 0.07 | |
update_best_match | 0.11 | 0.00 | 0.11 | |
view_tomtom_hits | 1.14 | 0.00 | 1.16 | |
write_fasta | 0 | 0 | 0 | |