Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-09-12 11:41 -0400 (Thu, 12 Sep 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" | 4713 |
teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4444 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4450 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4483 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4430 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4428 |
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 1902/2258 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
seqArchRplus 1.5.0 (landing page) Sarvesh Nikumbh
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
teran2 | Linux (Ubuntu 24.04.1 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 seqArchRplus package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/seqArchRplus.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: seqArchRplus |
Version: 1.5.0 |
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:seqArchRplus.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings seqArchRplus_1.5.0.tar.gz |
StartedAt: 2024-09-12 03:03:28 -0400 (Thu, 12 Sep 2024) |
EndedAt: 2024-09-12 03:10:36 -0400 (Thu, 12 Sep 2024) |
EllapsedTime: 427.9 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: seqArchRplus.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:seqArchRplus.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings seqArchRplus_1.5.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/seqArchRplus.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 * running under: Ubuntu 22.04.5 LTS * using session charset: UTF-8 * checking for file ‘seqArchRplus/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘seqArchRplus’ version ‘1.5.0’ * 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 ‘seqArchRplus’ 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 whether startup messages can be suppressed ... 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 ... WARNING Missing link or links in Rd file 'generate_all_plots.Rd': ‘[CAGEr]{clusterCTSS}’ 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed per_cluster_go_term_enrichments 44.898 0.823 45.726 generate_all_plots 35.674 1.012 36.651 per_cluster_annotations 7.981 0.176 8.157 curate_clusters 7.791 0.228 8.021 plot_motif_heatmaps2 6.079 0.252 6.266 * 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: 1 WARNING See ‘/home/biocbuild/bbs-3.20-bioc/meat/seqArchRplus.Rcheck/00check.log’ for details.
seqArchRplus.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL seqArchRplus ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’ * installing *source* package ‘seqArchRplus’ ... ** 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 (seqArchRplus)
seqArchRplus.Rcheck/seqArchRplus-Ex.timings
name | user | system | elapsed | |
curate_clusters | 7.791 | 0.228 | 8.021 | |
generate_all_plots | 35.674 | 1.012 | 36.651 | |
generate_html_report | 0.005 | 0.000 | 0.005 | |
handle_tc_from_cage | 0.567 | 0.032 | 0.603 | |
iqw_tpm_plots | 0.466 | 0.060 | 0.526 | |
order_clusters_iqw | 0.016 | 0.000 | 0.016 | |
per_cluster_annotations | 7.981 | 0.176 | 8.157 | |
per_cluster_go_term_enrichments | 44.898 | 0.823 | 45.726 | |
per_cluster_seqlogos | 1.600 | 0.000 | 1.599 | |
per_cluster_strand_dist | 0.774 | 0.000 | 0.773 | |
plot_motif_heatmaps | 1.226 | 0.008 | 1.234 | |
plot_motif_heatmaps2 | 6.079 | 0.252 | 6.266 | |
seqs_acgt_image | 0.25 | 0.00 | 0.25 | |
write_seqArchR_cluster_track_bed | 0.036 | 0.000 | 0.035 | |