Movatterモバイル変換

################################################################################################################################################################## Running command:######   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:idpr.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings idpr_1.20.0.tar.gz###############################################################################################################################################################* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/idpr.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 ‘idpr/DESCRIPTION’ ... OK* checking extension type ... Package* this is package ‘idpr’ version ‘1.20.0’* 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 ‘idpr’ 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 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 ... 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 contents of ‘data’ directory ... OK* checking data for non-ASCII characters ... OK* checking LazyData ... OK* checking data for ASCII and uncompressed saves ... OK* checking R/sysdata.rda ... 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 re-building of vignette outputs ... ERRORError(s) in re-building vignettes:--- re-building ‘chargeHydropathy-vignette.Rmd’ using rmarkdown--- finished re-building ‘chargeHydropathy-vignette.Rmd’--- re-building ‘disorderedMatrices-vignette.Rmd’ using rmarkdown--- finished re-building ‘disorderedMatrices-vignette.Rmd’--- re-building ‘idpr-vignette.Rmd’ using rmarkdownQuitting from idpr-vignette.Rmd:274-276 [unnamed-chunk-6]~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~<error/rlang_error>Error in `open.connection()`:! cannot open the connection to 'https://iupred2a.elte.hu/iupred2a/anchor/P04637.json'---Backtrace:    ▆ 1. └─idpr::iupredAnchor(P53_ID) 2.   └─jsonlite::fromJSON(iupredURL) 3.     └─jsonlite:::parse_and_simplify(...) 4.       └─jsonlite:::parseJSON(txt, bigint_as_char) 5.         └─jsonlite:::parse_con(txt, bigint_as_char) 6.           ├─base::open(con, "rb") 7.           └─base::open.connection(con, "rb")~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Error: processing vignette 'idpr-vignette.Rmd' failed with diagnostics:cannot open the connection to 'https://iupred2a.elte.hu/iupred2a/anchor/P04637.json'--- failed re-building ‘idpr-vignette.Rmd’--- re-building ‘iupred-vignette.Rmd’ using rmarkdown--- finished re-building ‘iupred-vignette.Rmd’--- re-building ‘sequenceMAP-vignette.Rmd’ using rmarkdown--- finished re-building ‘sequenceMAP-vignette.Rmd’--- re-building ‘structuralTendency-vignette.Rmd’ using rmarkdown--- finished re-building ‘structuralTendency-vignette.Rmd’SUMMARY: processing the following file failed:  ‘idpr-vignette.Rmd’Error: Vignette re-building failed.Execution halted* checking PDF version of manual ... OK* DONEStatus: 1 ERRORSee  ‘/home/biocbuild/bbs-3.22-bioc/meat/idpr.Rcheck/00check.log’for details.

################################################################################################################################################################## Running command:######   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL idpr###############################################################################################################################################################* installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’* installing *source* package ‘idpr’ ...** this is package ‘idpr’ version ‘1.20.0’** using staged installation** R** data*** moving datasets to lazyload DB** 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 (idpr)

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.> library(testthat)> library(idpr)> > test_check("idpr")[ FAIL 0 | WARN 0 | SKIP 0 | PASS 47 ]> > proc.time()   user  system elapsed   1.504   0.104   1.598