Norman Pavelka
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/plgem |
| Branch: RELEASE_3_9 |
| Last Commit: c0a5ce5 |
| Last Changed Date: 2019-05-02 11:53:04 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:19:57 -0400 (Wed, 16 Oct 2019).
| Package 1221/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| plgem 1.56.0 Norman Pavelka
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: plgem |
| Version: 1.56.0 |
| Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:plgem.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings plgem_1.56.0.tar.gz |
| StartedAt: 2019-10-16 06:02:00 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 06:03:38 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 97.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: plgem.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:plgem.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings plgem_1.56.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/plgem.Rcheck' * using R version 3.6.1 (2019-07-05) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'plgem/DESCRIPTION' ... OK * this is package 'plgem' version '1.56.0' * 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 'plgem' 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 plgem.fit :: no visible global function definition for 'sd' plgem.fit: no visible global function definition for 'quantile' plgem.fit: no visible global function definition for 'median' plgem.fit: no visible global function definition for 'lm' plgem.fit: no visible global function definition for 'coef' plgem.fit: no visible global function definition for 'summary.lm' plgem.fit: no visible global function definition for 'cor' plgem.fit: no visible global function definition for 'png' plgem.fit: no visible global function definition for 'layout' plgem.fit: no visible global function definition for 'par' plgem.fit: no visible global function definition for 'contour' plgem.fit: no visible global function definition for 'colors' plgem.fit: no visible global function definition for 'points' plgem.fit: no visible global function definition for 'abline' plgem.fit: no visible global function definition for 'text' plgem.fit: no visible global function definition for 'hist' plgem.fit: no visible global function definition for 'box' plgem.fit: no visible global function definition for 'qqnorm' plgem.fit: no visible global function definition for 'dev.off' plgem.fit: no visible global function definition for 'mtext' plgem.pValue: no visible binding for global variable 'ecdf' Undefined global functions or variables: abline box coef colors contour cor dev.off ecdf hist layout lm median mtext par png points qqnorm quantile sd summary.lm text Consider adding importFrom("grDevices", "colors", "dev.off", "png") importFrom("graphics", "abline", "box", "contour", "hist", "layout", "mtext", "par", "points", "text") importFrom("stats", "coef", "cor", "ecdf", "lm", "median", "qqnorm", "quantile", "sd", "summary.lm") 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 plgem.deg 7.09 0.26 7.38 plgem.pValue 6.47 0.22 6.68 run.plgem 4.99 0.23 5.22 ** running examples for arch 'x64' ... OK Examples with CPU or elapsed time > 5s user system elapsed plgem.pValue 6.86 0.28 7.18 run.plgem 6.46 0.21 6.67 plgem.deg 6.10 0.26 6.36 * 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 NOTE See 'C:/Users/biocbuild/bbs-3.9-bioc/meat/plgem.Rcheck/00check.log' for details.
plgem.Rcheck/00install.out
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### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/plgem_1.56.0.tar.gz && rm -rf plgem.buildbin-libdir && mkdir plgem.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=plgem.buildbin-libdir plgem_1.56.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL plgem_1.56.0.zip && rm plgem_1.56.0.tar.gz plgem_1.56.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
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100 158k 100 158k 0 0 1734k 0 --:--:-- --:--:-- --:--:-- 1868k
install for i386
* installing *source* package 'plgem' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'plgem'
finding HTML links ... done
LPSeset html
plgem.deg html
plgem.fit html
plgem.obsStn html
plgem.pValue html
plgem.resampledStn html
plgem.write.summary html
run.plgem html
setGpar 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 'plgem' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'plgem' as plgem_1.56.0.zip
* DONE (plgem)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'plgem' successfully unpacked and MD5 sums checked
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plgem.Rcheck/examples_i386/plgem-Ex.timings
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plgem.Rcheck/examples_x64/plgem-Ex.timings
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