| Back to Build/check report for BioC 3.23: simplified long |
|
This page was generated on 2025-11-12 11:32 -0500 (Wed, 12 Nov 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" | 4823 |
| 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 1040/2325 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| IMPCdata 1.47.0 (landing page) Jeremy Mason
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
|
To the developers/maintainers of the IMPCdata package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/IMPCdata.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: IMPCdata |
| Version: 1.47.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --install=check:IMPCdata.install-out.txt --library=/home/biocbuild/bbs-3.23-bioc/R/site-library --timings IMPCdata_1.47.0.tar.gz |
| StartedAt: 2025-11-12 00:32:18 -0500 (Wed, 12 Nov 2025) |
| EndedAt: 2025-11-12 00:34:34 -0500 (Wed, 12 Nov 2025) |
| EllapsedTime: 136.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: IMPCdata.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --install=check:IMPCdata.install-out.txt --library=/home/biocbuild/bbs-3.23-bioc/R/site-library --timings IMPCdata_1.47.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.23-bioc/meat/IMPCdata.Rcheck’
* using R Under development (unstable) (2025-10-20 r88955)
* 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 ‘IMPCdata/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘IMPCdata’ version ‘1.47.0’
* 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 ‘IMPCdata’ 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 ... 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 sizes of PDF files under ‘inst/doc’ ...* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
getPhenCenters 0.935 0.017 12.095
printPhenCenters 0.127 0.002 6.570
* 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
IMPCdata.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD INSTALL IMPCdata ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.23-bioc/R/site-library’ * installing *source* package ‘IMPCdata’ ... ** this is package ‘IMPCdata’ version ‘1.47.0’ ** 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 (IMPCdata)
IMPCdata.Rcheck/IMPCdata-Ex.timings
| name | user | system | elapsed | |
| getAlleles | 0.365 | 0.019 | 3.911 | |
| getGenes | 0.381 | 0.012 | 2.996 | |
| getIMPCDataset | 0.046 | 0.002 | 0.918 | |
| getIMPCTable | 0.221 | 0.002 | 2.440 | |
| getName | 0.047 | 0.001 | 0.697 | |
| getParameters | 0.479 | 0.006 | 2.966 | |
| getPhenCenters | 0.935 | 0.017 | 12.095 | |
| getPipelines | 0.452 | 0.012 | 3.998 | |
| getProcedures | 0.383 | 0.004 | 3.695 | |
| getStrains | 0.218 | 0.006 | 2.533 | |
| getZygosities | 0.049 | 0.000 | 0.529 | |
| printAlleles | 0.453 | 0.011 | 2.811 | |
| printGenes | 0.335 | 0.004 | 3.082 | |
| printParameters | 0.415 | 0.006 | 3.131 | |
| printPhenCenters | 0.127 | 0.002 | 6.570 | |
| printPipelines | 0.485 | 0.006 | 3.338 | |
| printProcedures | 0.444 | 0.010 | 3.490 | |
| printStrains | 0.220 | 0.004 | 1.933 | |