Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-03-28 11:36:21 -0400 (Thu, 28 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4708 |
palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-03-16 r86144 ucrt) -- "Unsuffered Consequences" | 4446 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4471 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences" | 4426 |
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 475/2270 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
CTDquerier 2.11.0 (landing page) Xavier Escribà-Montagut
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
To the developers/maintainers of the CTDquerier package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CTDquerier.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: CTDquerier |
Version: 2.11.0 |
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:CTDquerier.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings CTDquerier_2.11.0.tar.gz |
StartedAt: 2024-03-27 21:34:16 -0400 (Wed, 27 Mar 2024) |
EndedAt: 2024-03-27 22:00:17 -0400 (Wed, 27 Mar 2024) |
EllapsedTime: 1560.8 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: CTDquerier.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:CTDquerier.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings CTDquerier_2.11.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/CTDquerier.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 ‘CTDquerier/DESCRIPTION’ ... OK * this is package ‘CTDquerier’ version ‘2.11.0’ * 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 ‘CTDquerier’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... NOTE License stub is invalid DCF. * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... NOTE Note: found 176 marked UTF-8 strings * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... WARNING Files in the 'vignettes' directory but no files in 'inst/doc': ‘batch_query.Rmd’ ‘biomed-central.csl’ ‘case_study.Rmd’ ‘case_study.bib’ ‘img/01_CTDbase.png’ ‘img/02_XKR4_keyword.png’ ‘img/03_BatchQuery.png’ ‘vignette.Rmd’ * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed enrich-methods 1.731 0.080 151.814 download_ctd_chem 1.530 0.203 151.929 load_ctd_chem 0.790 0.036 150.822 query_ctd_gene 0.678 0.064 150.744 download_ctd_dise 0.682 0.016 150.694 load_ctd_gene 0.634 0.011 150.648 download_ctd_genes 0.611 0.033 150.642 query_ctd_dise 0.571 0.044 150.609 load_ctd_dise 0.590 0.005 150.590 query_ctd_chem 0.582 0.013 150.589 * checking package vignettes ... NOTE Package has ‘vignettes’ subdirectory but apparently no vignettes. Perhaps the ‘VignetteBuilder’ information is missing from the DESCRIPTION file? * checking PDF version of manual ... OK * DONE Status: 1 WARNING, 3 NOTEs See ‘/home/biocbuild/bbs-3.19-bioc/meat/CTDquerier.Rcheck/00check.log’ for details.
CTDquerier.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL CTDquerier ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’ * installing *source* package ‘CTDquerier’ ... ** 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 (CTDquerier)
CTDquerier.Rcheck/CTDquerier-Ex.timings
name | user | system | elapsed | |
download_ctd_chem | 1.530 | 0.203 | 151.929 | |
download_ctd_dise | 0.682 | 0.016 | 150.694 | |
download_ctd_genes | 0.611 | 0.033 | 150.642 | |
enrich-methods | 1.731 | 0.080 | 151.814 | |
gala | 1.161 | 0.048 | 1.209 | |
get_table-methods | 0.988 | 0.052 | 1.040 | |
get_terms-methods | 0.986 | 0.016 | 1.002 | |
leaf_plot | 0.590 | 0.028 | 0.618 | |
load_ctd_chem | 0.790 | 0.036 | 150.822 | |
load_ctd_dise | 0.590 | 0.005 | 150.590 | |
load_ctd_gene | 0.634 | 0.011 | 150.648 | |
query_ctd_chem | 0.582 | 0.013 | 150.589 | |
query_ctd_dise | 0.571 | 0.044 | 150.609 | |
query_ctd_gene | 0.678 | 0.064 | 150.744 | |