Movatterモバイル変換

################################################################################################################################################################## Running command:######   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:ggkegg.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings ggkegg_1.8.0.tar.gz###############################################################################################################################################################* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/ggkegg.Rcheck’* using R version 4.5.2 (2025-10-31)* using platform: x86_64-pc-linux-gnu* R was compiled by    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0* running under: Ubuntu 24.04.3 LTS* using session charset: UTF-8* checking for file ‘ggkegg/DESCRIPTION’ ... OK* checking extension type ... Package* this is package ‘ggkegg’ version ‘1.8.0’* 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 ‘ggkegg’ can be installed ... OK* checking installed package size ... OK* checking package directory ... OK* checking ‘build’ directory ... OK* checking DESCRIPTION meta-information ... NOTELicense stub is invalid DCF.* 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 loading without being on the library search path ... 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 ... NOTEggplot_add.add_readable_edge_label: no visible binding for global  variable ‘x’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘y’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘xend’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘yend’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘group’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘label’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘angle2’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘angle’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘x1’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘y1’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘x2’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘y2’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘mx’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘my’ggplot_add.add_readable_edge_label: no visible binding for global  variable ‘ma’Undefined global functions or variables:  angle angle2 group label ma mx my x x1 x2 xend y y1 y2 yend* 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 ... OKExamples with CPU (user + system) or elapsed time > 5s                   user system elapsedappend_cp         6.113  0.607  14.361module            1.093  0.660   6.238pathway_abundance 1.503  0.089  16.857rawMap            1.210  0.100   7.537* 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 re-building of vignette outputs ... OK* checking PDF version of manual ... OK* DONEStatus: 2 NOTEsSee  ‘/home/biocbuild/bbs-3.22-bioc/meat/ggkegg.Rcheck/00check.log’for details.

################################################################################################################################################################## Running command:######   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL ggkegg###############################################################################################################################################################* installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’* installing *source* package ‘ggkegg’ ...** this is package ‘ggkegg’ version ‘1.8.0’** using staged installation** R** inst** byte-compile and prepare package for lazy loading** help*** installing help indices*** copying figures** 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 (ggkegg)

R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"Copyright (C) 2025 The R Foundation for Statistical ComputingPlatform: x86_64-pc-linux-gnuR 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.> # This file is part of the standard setup for testthat.> # It is recommended that you do not modify it.> #> # Where should you do additional test configuration?> # Learn more about the roles of various files in:> # * https://r-pkgs.org/tests.html> # * https://testthat.r-lib.org/reference/test_package.html#special-files> > library(testthat)> library(ggkegg)Loading required package: ggplot2Loading required package: ggraphLoading required package: XMLLoading required package: igraphAttaching package: 'igraph'The following object is masked from 'package:testthat':    compareThe following objects are masked from 'package:stats':    decompose, spectrumThe following object is masked from 'package:base':    unionLoading required package: tidygraphAttaching package: 'tidygraph'The following object is masked from 'package:igraph':    groupsThe following object is masked from 'package:stats':    filter> > test_check("ggkegg")trying URL 'https://rest.kegg.jp/get/M00004'downloaded 278 KBtrying URL 'https://rest.kegg.jp/get/N00002'downloaded 2119 bytestrying URL 'https://rest.kegg.jp/get/hsa04110/kgml'downloaded 51 KB[ FAIL 0 | WARN 5 | SKIP 0 | PASS 20 ][ FAIL 0 | WARN 5 | SKIP 0 | PASS 20 ]> > proc.time()   user  system elapsed   5.244   0.357  10.774