Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-08-27 11:44 -0400 (Tue, 27 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4703 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4440 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4472 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4421 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4415 |
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 514/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
DeconRNASeq 1.47.0 (landing page) Ting Gong
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | 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 DeconRNASeq package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/DeconRNASeq.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: DeconRNASeq |
Version: 1.47.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:DeconRNASeq.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings DeconRNASeq_1.47.0.tar.gz |
StartedAt: 2024-08-26 20:45:39 -0400 (Mon, 26 Aug 2024) |
EndedAt: 2024-08-26 20:45:55 -0400 (Mon, 26 Aug 2024) |
EllapsedTime: 16.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: DeconRNASeq.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:DeconRNASeq.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings DeconRNASeq_1.47.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/DeconRNASeq.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 ‘DeconRNASeq/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘DeconRNASeq’ version ‘1.47.0’ * 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 ‘DeconRNASeq’ can be installed ... OK * checking installed package size ... NOTE installed size is 6.6Mb sub-directories of 1Mb or more: data 6.5Mb * 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 ... NOTE 'library' or 'require' call to ‘grid’ which was already attached by Depends. Please remove these calls from your code. Packages in Depends field not imported from: ‘ggplot2’ ‘grid’ ‘pcaMethods’ These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE DeconRNASeq: no visible global function definition for ‘prep’ DeconRNASeq: no visible global function definition for ‘pca’ DeconRNASeq: no visible global function definition for ‘R2cum’ DeconRNASeq: no visible global function definition for ‘ggplot’ DeconRNASeq: no visible global function definition for ‘aes’ DeconRNASeq: no visible global function definition for ‘geom_point’ DeconRNASeq: no visible global function definition for ‘labs’ DeconRNASeq: no visible global function definition for ‘geom_abline’ DeconRNASeq: no visible global function definition for ‘xlab’ DeconRNASeq: no visible global function definition for ‘ylab’ condplot: no visible global function definition for ‘rainbow’ condplot: no visible global function definition for ‘lines’ condplot: no visible global function definition for ‘axis’ condplot: no visible global function definition for ‘title’ decon.bootstrap: no visible global function definition for ‘t.test’ multiplot: no visible global function definition for ‘grid.newpage’ multiplot: no visible global function definition for ‘pushViewport’ multiplot: no visible global function definition for ‘viewport’ multiplot: no visible global function definition for ‘grid.layout’ multiplot : vplayout: no visible global function definition for ‘viewport’ Undefined global functions or variables: R2cum aes axis geom_abline geom_point ggplot grid.layout grid.newpage labs lines pca prep pushViewport rainbow t.test title viewport xlab ylab Consider adding importFrom("grDevices", "rainbow") importFrom("graphics", "axis", "lines", "title") importFrom("stats", "t.test") to your NAMESPACE file. * 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 ... OK * checking data for ASCII and uncompressed saves ... OK * checking sizes of PDF files under ‘inst/doc’ ... 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: 3 NOTEs See ‘/Users/biocbuild/bbs-3.20-bioc/meat/DeconRNASeq.Rcheck/00check.log’ for details.
DeconRNASeq.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL DeconRNASeq ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘DeconRNASeq’ ... ** using staged installation ** R ** data ** demo ** 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 (DeconRNASeq)
DeconRNASeq.Rcheck/DeconRNASeq-Ex.timings
name | user | system | elapsed | |
DeconRNASeq | 0.001 | 0.000 | 0.000 | |
all.datasets | 0.027 | 0.002 | 0.030 | |
array.proportions | 0.021 | 0.002 | 0.022 | |
array.signatures | 0.021 | 0.002 | 0.023 | |
condplot | 0.021 | 0.002 | 0.023 | |
datasets | 0.040 | 0.001 | 0.041 | |
fraction | 0.109 | 0.002 | 0.110 | |
liver_kidney | 0.039 | 0.001 | 0.040 | |
multi_tissue | 0.107 | 0.002 | 0.109 | |
multiplot | 0.001 | 0.000 | 0.000 | |
proportions | 0.040 | 0.002 | 0.041 | |
signatures | 0.039 | 0.001 | 0.040 | |
x.data | 0.107 | 0.002 | 0.109 | |
x.signature | 0.106 | 0.002 | 0.108 | |
x.signature.filtered | 0.105 | 0.002 | 0.107 | |
x.signature.filtered.optimal | 0.106 | 0.001 | 0.107 | |