Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-11-09 21:30 -0500 (Sat, 09 Nov 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4505 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4506 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4538 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4486 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4493 |
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 879/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
GMRP 1.34.0 (landing page) Yuan-De Tan
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the GMRP package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GMRP.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: GMRP |
Version: 1.34.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:GMRP.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings GMRP_1.34.0.tar.gz |
StartedAt: 2024-11-09 03:46:17 -0500 (Sat, 09 Nov 2024) |
EndedAt: 2024-11-09 03:50:27 -0500 (Sat, 09 Nov 2024) |
EllapsedTime: 250.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: GMRP.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:GMRP.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings GMRP_1.34.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/GMRP.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.6.7 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘GMRP/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘GMRP’ version ‘1.34.0’ * checking package namespace information ... OK * checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib: cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES' 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 ‘GMRP’ 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 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 ... NOTE checkRd: (-1) cad.data.Rd:5: Lost braces 5 | bold{GWAS} Meta-analyzed Data of Coronary Artery Disease | ^ checkRd: (-1) chrp.Rd:15: Lost braces 15 | character vector represented with code{chr##.#######} where chr## is chromosome number and \code{.#######} is SNP site (bp). | ^ * 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 ... OK * checking data for ASCII and uncompressed saves ... OK * checking sizes of PDF files under ‘inst/doc’ ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in vignettes ... NOTE Warning: parse error in file '/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/GMRP/doc/GMRP.R': 131:1: unexpected input 130: ################################################### 131: << ^ * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/Users/biocbuild/bbs-3.20-bioc/meat/GMRP.Rcheck/00check.log’ for details.
GMRP.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL GMRP ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘GMRP’ ... ** 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 Warning in fun(libname, pkgname) : Package 'GMRP' is deprecated and will be removed from Bioconductor version 3.7 ** testing if installed package can be loaded from final location Warning in fun(libname, pkgname) : Package 'GMRP' is deprecated and will be removed from Bioconductor version 3.7 ** testing if installed package keeps a record of temporary installation path * DONE (GMRP)
GMRP.Rcheck/GMRP-Ex.timings
name | user | system | elapsed | |
GMRP-package | 0.184 | 0.006 | 0.191 | |
SNP358.data | 0.001 | 0.001 | 0.002 | |
SNP368annot.data | 0.001 | 0.001 | 0.001 | |
beta.data | 0.000 | 0.001 | 0.001 | |
cad.data | 0.005 | 0.001 | 0.007 | |
chrp | 0.012 | 0.001 | 0.013 | |
fmerge | 0.002 | 0.000 | 0.002 | |
lpd.data | 0.010 | 0.001 | 0.010 | |
mktable | 0.024 | 0.003 | 0.027 | |
path | 0.003 | 0.002 | 0.004 | |
pathdiagram | 0.014 | 0.001 | 0.016 | |
pathdiagram2 | 0.021 | 0.002 | 0.023 | |
snpPositAnnot | 0.019 | 0.002 | 0.021 | |
ucscannot | 0.009 | 0.002 | 0.011 | |