Guangchuang Yu
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/ggtree |
| Branch: RELEASE_3_6 |
| Last Commit: fa0ed12 |
| Last Changed Date: 2018-02-24 05:19:52 -0400 (Sat, 24 Feb 2018) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:25:39 -0400 (Thu, 12 Apr 2018).
| Package 585/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| ggtree 1.10.5 Guangchuang Yu
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: ggtree |
| Version: 1.10.5 |
| Command: rm -rf ggtree.buildbin-libdir ggtree.Rcheck && mkdir ggtree.buildbin-libdir ggtree.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ggtree.buildbin-libdir ggtree_1.10.5.tar.gz >ggtree.Rcheck\00install.out 2>&1 && cp ggtree.Rcheck\00install.out ggtree-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=ggtree.buildbin-libdir --install="check:ggtree-install.out" --force-multiarch --no-vignettes --timings ggtree_1.10.5.tar.gz |
| StartedAt: 2018-04-12 00:24:59 -0400 (Thu, 12 Apr 2018) |
| EndedAt: 2018-04-12 00:27:12 -0400 (Thu, 12 Apr 2018) |
| EllapsedTime: 133.3 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: ggtree.Rcheck |
| Warnings: 1 |
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### Running command:
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### rm -rf ggtree.buildbin-libdir ggtree.Rcheck && mkdir ggtree.buildbin-libdir ggtree.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ggtree.buildbin-libdir ggtree_1.10.5.tar.gz >ggtree.Rcheck\00install.out 2>&1 && cp ggtree.Rcheck\00install.out ggtree-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=ggtree.buildbin-libdir --install="check:ggtree-install.out" --force-multiarch --no-vignettes --timings ggtree_1.10.5.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/ggtree.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ggtree/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ggtree' version '1.10.5'
* 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 whether package 'ggtree' can be installed ... WARNING
Found the following significant warnings:
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpY3bpKR/R.INSTALL21b0673f1ff7/ggtree/man/geom_label2.Rd:52: missing file link 'geom_label'
See 'C:/Users/biocbuild/bbs-3.6-bioc/meat/ggtree.Rcheck/00install.out' for details.
* checking installed package size ... NOTE
installed size is 9.9Mb
sub-directories of 1Mb or more:
doc 5.1Mb
examples 3.7Mb
* 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 R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'testthat.R'
OK
** running tests for arch 'x64' ...
Running 'testthat.R'
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 1 WARNING, 1 NOTE
See
'C:/Users/biocbuild/bbs-3.6-bioc/meat/ggtree.Rcheck/00check.log'
for details.
ggtree.Rcheck/00install.out
install for i386
* installing *source* package 'ggtree' ...
** R
** inst
** byte-compile and prepare package for lazy loading
Note: wrong number of arguments to '>'
** help
*** installing help indices
converting help for package 'ggtree'
finding HTML links ... done
Date2decimal html
GetSubtree.df html
GetSubtreeUnrooted html
MRCA html
NJ html
add-TREEDATA html
add_TREEINFO html
add_colorbar html
annotation_image html
apeBoot html
applyLayoutDaylight html
as.binary html
as.data.frame.phylo html
as.polytomy html
collapse html
decimal2Date html
dotFun html
download.phylopic html
expand html
facet_plot html
flip html
fortify html
geom_aline html
geom_balance html
geom_cladelabel html
geom_cladelabel2 html
geom_hilight html
geom_hilight_encircle html
geom_label2 html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpY3bpKR/R.INSTALL21b0673f1ff7/ggtree/man/geom_label2.Rd:52: missing file link 'geom_label'
geom_motif html
geom_nodelab html
geom_nodepoint html
geom_point2 html
geom_range html
geom_rootpoint html
geom_segment2 html
geom_strip html
geom_taxalink html
geom_text2 html
geom_tiplab html
geom_tiplab2 html
geom_tippoint html
geom_tree html
geom_tree2 html
geom_treescale html
get.offspring.tip html
get.path html
get.phylopic html
getChild.df html
getNodeAngle.df html
getNodesBreadthFirst.df html
getParent.df html
getSubtree html
getSubtreeUnrooted.df html
getTreeArcAngles html
get_balance_position html
get_clade_position html
get_heatmap_column_position html
get_taxa_name html
ggtree-ggproto html
ggtree html
gheatmap html
groupClade-methods html
groupOTU-methods html
gzoom-methods html
gzoom.phylo html
identify html
inset html
layoutDaylight html
layoutEqualAngle html
msaplot html
multiplot html
nodebar html
nodeid html
nodepie html
open_tree html
phylopic html
pipe html
print.beastList html
reroot-methods html
rescale_tree html
revts html
rm.singleton.newick html
rotate html
rotateTreePoints.df html
rotate_tree html
scaleClade html
scale_color-methods html
scale_x_ggtree html
set_hilight_legend html
stat_balance html
stat_hilight html
subview html
theme_inset html
theme_transparent html
theme_tree html
theme_tree2 html
update-TREE html
viewClade html
xlim_expand html
xlim_tree html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'ggtree' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ggtree' as ggtree_1.10.5.zip
* DONE (ggtree)
In R CMD INSTALL
In R CMD INSTALL
|
ggtree.Rcheck/tests_i386/testthat.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)
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)
Loading required package: ggplot2
Loading required package: treeio
ggtree v1.10.5 For help: https://guangchuangyu.github.io/ggtree
If you use ggtree in published research, please cite:
Guangchuang Yu, David Smith, Huachen Zhu, Yi Guan, Tommy Tsan-Yuk Lam. ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data. Methods in Ecology and Evolution 2017, 8(1):28-36, doi:10.1111/2041-210X.12628
>
> test_check("ggtree")
== testthat results ===========================================================
OK: 15 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
2.28 0.09 2.53
|
ggtree.Rcheck/tests_x64/testthat.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)
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)
Loading required package: ggplot2
Loading required package: treeio
ggtree v1.10.5 For help: https://guangchuangyu.github.io/ggtree
If you use ggtree in published research, please cite:
Guangchuang Yu, David Smith, Huachen Zhu, Yi Guan, Tommy Tsan-Yuk Lam. ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data. Methods in Ecology and Evolution 2017, 8(1):28-36, doi:10.1111/2041-210X.12628
>
> test_check("ggtree")
== testthat results ===========================================================
OK: 15 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
2.95 0.07 3.28
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ggtree.Rcheck/examples_i386/ggtree-Ex.timings
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ggtree.Rcheck/examples_x64/ggtree-Ex.timings
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