Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-07-24 09:03 -0400 (Wed, 24 Jul 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4747 |
palomino7 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4489 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4518 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4467 |
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 1752/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
RGMQL 1.24.0 (landing page) Simone Pallotta
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | ERROR | OK | |||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | ... NOT SUPPORTED ... | ||||||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | ... NOT SUPPORTED ... | ||||||||||||
To the developers/maintainers of the RGMQL package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RGMQL.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: RGMQL |
Version: 1.24.0 |
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:RGMQL.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings RGMQL_1.24.0.tar.gz |
StartedAt: 2024-07-22 04:14:40 -0400 (Mon, 22 Jul 2024) |
EndedAt: 2024-07-22 04:19:34 -0400 (Mon, 22 Jul 2024) |
EllapsedTime: 293.9 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: RGMQL.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:RGMQL.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings RGMQL_1.24.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/RGMQL.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 22.04.4 LTS * using session charset: UTF-8 * checking for file ‘RGMQL/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘RGMQL’ version ‘1.24.0’ * 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 ... NOTE Found the following hidden files and directories: .BBSoptions These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... WARNING Found the following file with a non-portable file name: Example of workflows These are not fully portable file names. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for sufficient/correct file permissions ... OK * checking whether package ‘RGMQL’ can be installed ... OK * checking installed package size ... NOTE installed size is 48.9Mb sub-directories of 1Mb or more: example 48.3Mb * 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 take 6.722 0.254 1.604 aggr-class 5.963 0.366 2.188 show_dataset 0.086 0.001 7.244 * 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, 2 NOTEs See ‘/home/biocbuild/bbs-3.19-bioc/meat/RGMQL.Rcheck/00check.log’ for details.
RGMQL.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL RGMQL ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’ * installing *source* package ‘RGMQL’ ... ** 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 (RGMQL)
RGMQL.Rcheck/RGMQL-Ex.timings
name | user | system | elapsed | |
aggr-class | 5.963 | 0.366 | 2.188 | |
aggregate | 0.038 | 0.007 | 0.021 | |
arrange | 0.030 | 0.003 | 0.025 | |
collect | 0.028 | 0.001 | 0.021 | |
compile_query | 0.076 | 0.004 | 2.404 | |
cover-param-class | 0.056 | 0.004 | 0.039 | |
cover | 0.057 | 0.000 | 0.029 | |
delete_dataset | 0 | 0 | 0 | |
distal-class | 0.060 | 0.005 | 0.048 | |
download_dataset | 0 | 0 | 0 | |
execute | 0.027 | 0.006 | 0.020 | |
export_gmql | 0.373 | 0.061 | 0.430 | |
extend | 0.040 | 0.008 | 0.028 | |
filter | 0.100 | 0.013 | 0.074 | |
filter_and_extract | 1.490 | 0.040 | 1.526 | |
group_by | 0.055 | 0.000 | 0.045 | |
import_gmql | 0.143 | 0.004 | 0.147 | |
init_gmql | 0.016 | 0.000 | 0.164 | |
log_job | 0.018 | 0.000 | 0.344 | |
login_gmql | 0.009 | 0.000 | 0.155 | |
logout_gmql | 0.022 | 0.000 | 0.413 | |
map | 0.043 | 0.003 | 0.034 | |
merge | 0.053 | 0.000 | 0.032 | |
operator-class | 0.123 | 0.013 | 0.072 | |
ordering-class | 0.071 | 0.000 | 0.031 | |
read-function | 0.098 | 0.000 | 0.384 | |
register_gmql | 0.000 | 0.001 | 0.000 | |
remote_processing | 0.002 | 0.003 | 0.005 | |
run_query | 0 | 0 | 0 | |
sample_metadata | 0.021 | 0.004 | 0.497 | |
sample_region | 0.001 | 0.000 | 0.001 | |
save_query | 0.072 | 0.004 | 1.353 | |
select | 0.071 | 0.000 | 0.058 | |
semijoin | 0.065 | 0.008 | 0.042 | |
setdiff | 0.058 | 0.003 | 0.038 | |
show_all_metadata | 0.046 | 0.012 | 0.507 | |
show_dataset | 0.086 | 0.001 | 7.244 | |
show_jobs_list | 0.027 | 0.004 | 0.368 | |
show_queries_list | 0.030 | 0.004 | 0.365 | |
show_samples_list | 0.032 | 0.004 | 0.387 | |
show_schema | 0.028 | 0.004 | 0.364 | |
stop_gmql | 0.094 | 0.010 | 0.043 | |
stop_job | 0.001 | 0.000 | 0.001 | |
take | 6.722 | 0.254 | 1.604 | |
union | 0.114 | 0.000 | 0.030 | |
upload_dataset | 0 | 0 | 0 | |