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This page was generated on 2024-03-27 11:37:19 -0400 (Wed, 27 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_64R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" 4698
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2024-03-16 r86144 ucrt) -- "Unsuffered Consequences" 4436
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" 4461
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences" 4376
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 1911/2264HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
seqArchRplus 1.3.0  (landing page)
Sarvesh Nikumbh
Snapshot Date: 2024-03-26 14:00:18 -0400 (Tue, 26 Mar 2024)
git_url: https://git.bioconductor.org/packages/seqArchRplus
git_branch: devel
git_last_commit: ba45a39
git_last_commit_date: 2023-10-24 11:45:43 -0400 (Tue, 24 Oct 2023)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    OK  

CHECK results for seqArchRplus on nebbiolo1


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.

raw results


Summary

Package: seqArchRplus
Version: 1.3.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:seqArchRplus.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings seqArchRplus_1.3.0.tar.gz
StartedAt: 2024-03-27 02:34:37 -0400 (Wed, 27 Mar 2024)
EndedAt: 2024-03-27 02:41:49 -0400 (Wed, 27 Mar 2024)
EllapsedTime: 431.9 seconds
RetCode: 0
Status:   OK  
CheckDir: seqArchRplus.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:seqArchRplus.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings seqArchRplus_1.3.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/seqArchRplus.Rcheck’
* using R Under development (unstable) (2024-03-18 r86148)
* 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 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘seqArchRplus/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘seqArchRplus’ version ‘1.3.0’
* 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 ... 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
per_cluster_go_term_enrichments 42.031  1.109  43.233
generate_all_plots              36.738  1.372  38.093
per_cluster_annotations          9.566  0.180   9.746
curate_clusters                  8.889  0.312   9.203
plot_motif_heatmaps2             6.069  0.212   6.222
* 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: OK


Installation output

seqArchRplus.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL seqArchRplus
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.19-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)

Tests output


Example timings

seqArchRplus.Rcheck/seqArchRplus-Ex.timings

nameusersystemelapsed
curate_clusters8.8890.3129.203
generate_all_plots36.738 1.37238.093
generate_html_report0.0060.0000.007
handle_tc_from_cage0.6520.0320.773
iqw_tpm_plots0.4490.0040.453
order_clusters_iqw0.0140.0000.015
per_cluster_annotations9.5660.1809.746
per_cluster_go_term_enrichments42.031 1.10943.233
per_cluster_seqlogos1.7020.0041.705
per_cluster_strand_dist0.7900.0040.794
plot_motif_heatmaps1.2270.0241.252
plot_motif_heatmaps26.0690.2126.222
seqs_acgt_image0.2510.0000.251
write_seqArchR_cluster_track_bed0.0350.0000.036