Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-24 11:46 -0500 (Tue, 24 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4373 |
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 853/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
ggtree 3.15.0 (landing page) Guangchuang Yu
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the ggtree package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ggtree.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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
Package: ggtree |
Version: 3.15.0 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:ggtree.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings ggtree_3.15.0.tar.gz |
StartedAt: 2024-12-24 07:14:02 -0000 (Tue, 24 Dec 2024) |
EndedAt: 2024-12-24 07:16:28 -0000 (Tue, 24 Dec 2024) |
EllapsedTime: 146.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: ggtree.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:ggtree.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings ggtree_3.15.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/ggtree.Rcheck’ * using R Under development (unstable) (2024-11-24 r87369) * using platform: aarch64-unknown-linux-gnu * R was compiled by aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0 GNU Fortran (GCC) 14.2.0 * running under: openEuler 24.03 (LTS) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘ggtree/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘ggtree’ version ‘3.15.0’ * 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 ‘ggtree’ 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 ...Warning: program compiled against libxml 212 using older 211 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 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ 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: OK
ggtree.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL ggtree ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library’ * installing *source* package ‘ggtree’ ... ** 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 (ggtree)
ggtree.Rcheck/tests/testthat.Rout
R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-unknown-linux-gnu R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(ggtree) ggtree v3.15.0 Learn more at https://yulab-smu.top/contribution-tree-data/ Please cite: Shuangbin Xu, Lin Li, Xiao Luo, Meijun Chen, Wenli Tang, Li Zhan, Zehan Dai, Tommy T. Lam, Yi Guan, Guangchuang Yu. Ggtree: A serialized data object for visualization of a phylogenetic tree and annotation data. iMeta 2022, 1(4):e56. doi:10.1002/imt2.56 > > test_check("ggtree") [ FAIL 0 | WARN 3 | SKIP 0 | PASS 14 ] [ FAIL 0 | WARN 3 | SKIP 0 | PASS 14 ] > > proc.time() user system elapsed 2.771 0.127 2.889
ggtree.Rcheck/ggtree-Ex.timings
name | user | system | elapsed | |
collapse | 0.395 | 0.060 | 0.457 | |
expand | 0.216 | 0.008 | 0.224 | |
facet-plot | 0.358 | 0.012 | 0.370 | |
flip | 0.250 | 0.004 | 0.254 | |
geom-hilight | 2.642 | 0.040 | 2.687 | |
geom_balance | 0.341 | 0.040 | 0.381 | |
geom_cladelab | 0.588 | 0.064 | 0.659 | |
geom_label2 | 0.462 | 0.020 | 0.483 | |
geom_point2 | 1.192 | 0.116 | 1.313 | |
geom_rootedge | 0.935 | 0.000 | 0.936 | |
geom_rootpoint | 0.376 | 0.000 | 0.376 | |
geom_strip | 0.222 | 0.000 | 0.222 | |
geom_striplab | 0.302 | 0.011 | 0.314 | |
geom_tiplab | 0.212 | 0.008 | 0.221 | |
geom_tiplab2 | 0.327 | 0.001 | 0.327 | |
geom_tippoint | 0.191 | 0.003 | 0.195 | |
geom_tree | 0.175 | 0.000 | 0.175 | |
get_taxa_name | 0.037 | 0.000 | 0.036 | |
ggdensitree | 2.104 | 0.003 | 2.113 | |
ggexpand | 0.290 | 0.000 | 0.291 | |
ggtree-format-painter | 0.226 | 0.000 | 0.227 | |
ggtree | 0.181 | 0.000 | 0.181 | |
label_pad | 0.001 | 0.000 | 0.001 | |
open_tree | 0.291 | 0.000 | 0.292 | |
reexports | 0.298 | 0.000 | 0.298 | |
revts | 0.199 | 0.000 | 0.200 | |
rotate | 0.203 | 0.000 | 0.204 | |
rotate_tree | 0.293 | 0.000 | 0.293 | |
scaleClade | 0.251 | 0.019 | 0.271 | |
theme_tree | 0.205 | 0.000 | 0.205 | |
theme_tree2 | 0.214 | 0.000 | 0.214 | |
tree-layout | 1.232 | 0.000 | 1.235 | |
viewClade | 0.295 | 0.000 | 0.295 | |
xlim_expand | 0.376 | 0.000 | 0.377 | |
xlim_tree | 0.347 | 0.000 | 0.347 | |
zoomClade | 0 | 0 | 0 | |