Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-05-03 11:38:30 -0400 (Fri, 03 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" | 4660 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" | 4391 |
merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4422 |
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 1078/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
LinkHD 1.19.0 (landing page) "Laura M Zingaretti"
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | see weekly results here | ||||||||||||
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: 1.19.0 |
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_1.19.0.tar.gz |
StartedAt: 2024-05-02 06:29:28 -0400 (Thu, 02 May 2024) |
EndedAt: 2024-05-02 06:37:35 -0400 (Thu, 02 May 2024) |
EllapsedTime: 486.7 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_1.19.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/LinkHD.Rcheck’ * using R version 4.4.0 Patched (2024-04-24 r86482) * using platform: x86_64-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 Monterey 12.7.4 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘LinkHD/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘LinkHD’ version ‘1.19.0’ * 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 Examples with CPU (user + system) or elapsed time > 5s user system elapsed OTU2Taxa-OTU2Taxa 8.120 0.163 10.013 Variables-methods 4.611 0.041 5.443 Var_coordinates-methods 4.602 0.043 5.507 VarSelection 4.574 0.051 5.696 sign_values-methods 4.578 0.041 5.466 VarTable-methods 4.577 0.039 5.665 * 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-3.20-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/4.4-x86_64/Resources/library’ * installing *source* package ‘LinkHD’ ... ** 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 | 1.160 | 0.378 | 1.837 | |
DataProcessing | 0.060 | 0.005 | 0.075 | |
DistStatis-Class | 0.001 | 0.001 | 0.004 | |
DistStatis-CompromisePlot | 1.967 | 0.039 | 2.374 | |
DistStatis-CorrelationPlot | 1.820 | 0.076 | 2.294 | |
DistStatis-GlobalPlot | 1.952 | 0.091 | 2.467 | |
Euclid_Im-methods | 0.900 | 0.039 | 1.130 | |
Inertia_RV-methods | 0.853 | 0.012 | 1.042 | |
Inertia_comp-methods | 0.860 | 0.023 | 1.046 | |
LinkData-LinkData | 0.851 | 0.015 | 1.023 | |
OTU2Taxa-OTU2Taxa | 8.120 | 0.163 | 10.013 | |
RQO-methods | 0.881 | 0.038 | 1.104 | |
Read_Data | 0.000 | 0.000 | 0.001 | |
Ruminotypes | 0.001 | 0.002 | 0.007 | |
Taraoceans | 0.002 | 0.003 | 0.006 | |
Trajectories-methods | 1.603 | 0.996 | 3.138 | |
VarSelection-Class | 0.001 | 0.000 | 0.002 | |
VarSelection | 4.574 | 0.051 | 5.696 | |
VarTable-methods | 4.577 | 0.039 | 5.665 | |
Var_coordinates-methods | 4.602 | 0.043 | 5.507 | |
Variables-methods | 4.611 | 0.041 | 5.443 | |
compromise_coords-methods | 0.828 | 0.027 | 1.013 | |
correl-methods | 0.861 | 0.016 | 1.058 | |
dAB-dAB | 1.659 | 0.046 | 2.032 | |
sign_values-methods | 4.578 | 0.041 | 5.466 | |