Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2025-08-04 11:46 -0400 (Mon, 04 Aug 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4823 |
palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" | 4565 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4603 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4544 |
kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4579 |
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 1130/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
LinkHD 1.22.0 (landing page) "Laura M Zingaretti"
| nebbiolo1 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the LinkHD package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/LinkHD.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: LinkHD |
Version: 1.22.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:LinkHD.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings LinkHD_1.22.0.tar.gz |
StartedAt: 2025-08-02 00:27:28 -0400 (Sat, 02 Aug 2025) |
EndedAt: 2025-08-02 00:31:16 -0400 (Sat, 02 Aug 2025) |
EllapsedTime: 227.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: LinkHD.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:LinkHD.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings LinkHD_1.22.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/LinkHD.Rcheck’ * using R version 4.5.1 Patched (2025-06-14 r88325) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 16.0.0 (clang-1600.0.26.6) GNU Fortran (GCC) 14.2.0 * running under: macOS Ventura 13.7.5 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘LinkHD/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘LinkHD’ version ‘1.22.0’ * 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 ‘LinkHD’ 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 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) VarSelection.Rd:40: Lost braces; missing escapes or markup? 40 | a general linear regression into the $X$ matrix (${Y_hat}=X(X'X)^(-1)X'Y$) and the matrix $X(X'X)^(-1)X'$ is the projection matrix | ^ * 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 LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in vignettes ... OK * 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: 1 NOTE See ‘/Users/biocbuild/bbs-3.21-bioc/meat/LinkHD.Rcheck/00check.log’ for details.
LinkHD.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL LinkHD ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’ * installing *source* package ‘LinkHD’ ... ** this is package ‘LinkHD’ version ‘1.22.0’ ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 (LinkHD)
LinkHD.Rcheck/LinkHD-Ex.timings
name | user | system | elapsed | |
Compromise_matrix-methods | 1.251 | 0.120 | 1.376 | |
DataProcessing | 0.009 | 0.002 | 0.011 | |
DistStatis-Class | 0.001 | 0.001 | 0.001 | |
DistStatis-CompromisePlot | 0.621 | 0.041 | 0.667 | |
DistStatis-CorrelationPlot | 0.813 | 0.041 | 0.861 | |
DistStatis-GlobalPlot | 0.697 | 0.033 | 0.740 | |
Euclid_Im-methods | 0.250 | 0.018 | 0.273 | |
Inertia_RV-methods | 0.300 | 0.012 | 0.316 | |
Inertia_comp-methods | 0.347 | 0.013 | 0.362 | |
LinkData-LinkData | 1.177 | 0.027 | 1.206 | |
OTU2Taxa-OTU2Taxa | 2.319 | 0.042 | 2.363 | |
RQO-methods | 0.377 | 0.017 | 0.394 | |
Read_Data | 0 | 0 | 0 | |
Ruminotypes | 0.001 | 0.001 | 0.002 | |
Taraoceans | 0.000 | 0.002 | 0.002 | |
Trajectories-methods | 0.777 | 0.305 | 1.121 | |
VarSelection-Class | 0.000 | 0.001 | 0.000 | |
VarSelection | 1.582 | 0.031 | 1.614 | |
VarTable-methods | 1.559 | 0.035 | 1.594 | |
Var_coordinates-methods | 1.657 | 0.053 | 1.711 | |
Variables-methods | 1.591 | 0.031 | 1.623 | |
compromise_coords-methods | 0.388 | 0.016 | 0.404 | |
correl-methods | 0.382 | 0.007 | 0.389 | |
dAB-dAB | 0.718 | 0.015 | 0.734 | |
sign_values-methods | 1.586 | 0.042 | 1.629 | |