Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:06 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the gespeR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/gespeR.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 760/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
gespeR 1.24.0 (landing page) Fabian Schmich
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | |||||||||
Package: gespeR |
Version: 1.24.0 |
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:gespeR.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings gespeR_1.24.0.tar.gz |
StartedAt: 2021-10-14 23:45:40 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 23:51:55 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 375.3 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: gespeR.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:gespeR.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings gespeR_1.24.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/gespeR.Rcheck' * using R version 4.1.1 (2021-08-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'gespeR/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'gespeR' version '1.24.0' * 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 whether package 'gespeR' 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 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 ... NOTE .gespeR.cv: no visible global function definition for 'coef' .select.model: no visible global function definition for 'predict' concordance: no visible global function definition for 'cor' lasso.rand: no visible global function definition for 'runif' plot.gespeR: no visible global function definition for 'hist' stability.selection: no visible global function definition for 'lm' Phenotypes,character: no visible global function definition for 'read.delim' Undefined global functions or variables: coef cor hist lm predict read.delim runif Consider adding importFrom("graphics", "hist") importFrom("stats", "coef", "cor", "lm", "predict", "runif") importFrom("utils", "read.delim") 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 ... WARNING Codoc mismatches from documentation object 'c,Phenotypes-method': \S4method{c}{Phenotypes} Code: function(x, ...) Docs: function(x, ..., recursive = FALSE) Argument names in docs not in code: recursive * 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 files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed gespeR-package 6.78 0.58 50.61 gespeR-class 0.23 0.09 11.28 stability-methods 0.14 0.00 10.12 ** running examples for arch 'x64' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed gespeR-package 6.17 0.23 48.55 gespeR-class 0.81 0.02 10.50 stability-methods 0.16 0.00 9.47 * 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-3.13-bioc/meat/gespeR.Rcheck/00check.log' for details.
gespeR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/gespeR_1.24.0.tar.gz && rm -rf gespeR.buildbin-libdir && mkdir gespeR.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=gespeR.buildbin-libdir gespeR_1.24.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL gespeR_1.24.0.zip && rm gespeR_1.24.0.tar.gz gespeR_1.24.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 5 24.1M 5 1328k 0 0 1811k 0 0:00:13 --:--:-- 0:00:13 1812k 17 24.1M 17 4324k 0 0 2494k 0 0:00:09 0:00:01 0:00:08 2495k 31 24.1M 31 7699k 0 0 2800k 0 0:00:08 0:00:02 0:00:06 2800k 50 24.1M 50 12.2M 0 0 3347k 0 0:00:07 0:00:03 0:00:04 3347k 72 24.1M 72 17.6M 0 0 3802k 0 0:00:06 0:00:04 0:00:02 3802k 98 24.1M 98 23.8M 0 0 4262k 0 0:00:05 0:00:05 --:--:-- 4622k 100 24.1M 100 24.1M 0 0 4284k 0 0:00:05 0:00:05 --:--:-- 5053k install for i386 * installing *source* package 'gespeR' ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'gespeR' finding HTML links ... done Phenotypes-class html TargetRelations-class html annotate.gsp-methods html as.data.frame-Phenotypes-method html as.data.frame.concordance html c-Phenotypes-method html concordance html dim-Phenotypes-method html gespeR-class html finding level-2 HTML links ... done gespeR-package html gspssp-methods html join-methods html lasso.rand html na.rem-methods html path-methods html plot.Phenotypes html plot.concordance html plot.gespeR html rbo html scores-methods html simData html stability-methods html stability.selection html stabilityfits html sub-Phenotypes-ANY-ANY-ANY-method html sub-TargetRelations-ANY-ANY-ANY-method html target-relations-methods html trmatrix-methods html values-methods html ** 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 install for x64 * installing *source* package 'gespeR' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'gespeR' as gespeR_1.24.0.zip * DONE (gespeR) * installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library' package 'gespeR' successfully unpacked and MD5 sums checked
gespeR.Rcheck/examples_i386/gespeR-Ex.timings
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gespeR.Rcheck/examples_x64/gespeR-Ex.timings
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