Back to Multiple platform build/check report for BioC 3.8 |
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This page was generated on 2019-04-13 11:21:04 -0400 (Sat, 13 Apr 2019).
Package 231/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
CGHnormaliter 1.36.0 Bart P.P. van Houte
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | OK | |||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | |||||||
merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: CGHnormaliter |
Version: 1.36.0 |
Command: C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CGHnormaliter.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings CGHnormaliter_1.36.0.tar.gz |
StartedAt: 2019-04-13 01:06:48 -0400 (Sat, 13 Apr 2019) |
EndedAt: 2019-04-13 01:10:14 -0400 (Sat, 13 Apr 2019) |
EllapsedTime: 205.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: CGHnormaliter.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CGHnormaliter.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings CGHnormaliter_1.36.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/CGHnormaliter.Rcheck' * using R version 3.5.3 (2019-03-11) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'CGHnormaliter/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'CGHnormaliter' version '1.36.0' * checking package namespace information ... OK * checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib: cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES' 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 'CGHnormaliter' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking 'build' directory ... OK * checking DESCRIPTION meta-information ... NOTE Malformed Title field: should not end in a period. Packages listed in more than one of Depends, Imports, Suggests, Enhances: 'CGHbase' 'CGHcall' A package should be listed in only one of these fields. * 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 .plotMA: no visible global function definition for 'pdf' .plotMA: no visible global function definition for 'palette' .plotMA: no visible global function definition for 'par' .plotMA: no visible global function definition for 'plot' .plotMA: no visible global function definition for 'title' .plotMA: no visible global function definition for 'abline' .plotMA: no visible global function definition for 'dev.off' .readCghRaw: no visible global function definition for 'read.table' .readCghRaw: no visible global function definition for 'make_cghRaw' .runCGHcall: no visible global function definition for 'capture.output' .runCGHcall: no visible global function definition for 'ExpandCGHcall' CGHnormaliter: no visible binding for global variable 'segment' CGHnormaliter: no visible global function definition for 'capture.output' CGHnormaliter: no visible global function definition for 'normalize' CGHnormaliter: no visible global function definition for 'postsegnormalize' CGHnormaliter.write.table: no visible global function definition for 'segmented' CGHnormaliter.write.table: no visible global function definition for 'calls' Undefined global functions or variables: ExpandCGHcall abline calls capture.output dev.off make_cghRaw normalize palette par pdf plot postsegnormalize read.table segment segmented title Consider adding importFrom("grDevices", "dev.off", "palette", "pdf") importFrom("graphics", "abline", "par", "plot", "title") importFrom("utils", "capture.output", "read.table") 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 ... 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 data for ASCII and uncompressed saves ... OK * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK Examples with CPU or elapsed time > 5s user system elapsed CGHnormaliter 47.28 0.06 47.36 ** running examples for arch 'x64' ... OK Examples with CPU or elapsed time > 5s user system elapsed CGHnormaliter 50.87 0.06 50.94 * 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: 2 NOTEs See 'C:/Users/biocbuild/bbs-3.8-bioc/meat/CGHnormaliter.Rcheck/00check.log' for details.
CGHnormaliter.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/CGHnormaliter_1.36.0.tar.gz && rm -rf CGHnormaliter.buildbin-libdir && mkdir CGHnormaliter.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CGHnormaliter.buildbin-libdir CGHnormaliter_1.36.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL CGHnormaliter_1.36.0.zip && rm CGHnormaliter_1.36.0.tar.gz CGHnormaliter_1.36.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 760k 100 760k 0 0 17.0M 0 --:--:-- --:--:-- --:--:-- 18.5M install for i386 * installing *source* package 'CGHnormaliter' ... ** R ** data ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'CGHnormaliter' finding HTML links ... done CGHnormaliter-internal html CGHnormaliter-package html CGHnormaliter html CGHnormaliter.write.table html Leukemia html ** building package indices ** installing vignettes ** testing if installed package can be loaded In R CMD INSTALL install for x64 * installing *source* package 'CGHnormaliter' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'CGHnormaliter' as CGHnormaliter_1.36.0.zip * DONE (CGHnormaliter) In R CMD INSTALL In R CMD INSTALL * installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library' package 'CGHnormaliter' successfully unpacked and MD5 sums checked In R CMD INSTALL
CGHnormaliter.Rcheck/examples_i386/CGHnormaliter-Ex.timings
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CGHnormaliter.Rcheck/examples_x64/CGHnormaliter-Ex.timings
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