Yue Li
| Snapshot Date: 2019-04-07 17:01:41 -0400 (Sun, 07 Apr 2019) |
| URL: https://git.bioconductor.org/packages/Roleswitch |
| Branch: master |
| Last Commit: 4dd3b11 |
| Last Changed Date: 2018-10-30 11:54:31 -0400 (Tue, 30 Oct 2018) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-04-08 11:37:40 -0400 (Mon, 08 Apr 2019).
| Package 1379/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| Roleswitch 1.21.0 Yue Li
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | ERROR | skipped | skipped | |||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | ERROR | skipped | skipped |
| Package: Roleswitch |
| Version: 1.21.0 |
| Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Roleswitch.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings Roleswitch_1.21.0.tar.gz |
| StartedAt: 2019-04-08 05:53:07 -0400 (Mon, 08 Apr 2019) |
| EndedAt: 2019-04-08 05:59:21 -0400 (Mon, 08 Apr 2019) |
| EllapsedTime: 373.6 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: Roleswitch.Rcheck |
| Warnings: 1 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Roleswitch.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings Roleswitch_1.21.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/Roleswitch.Rcheck'
* using R Under development (unstable) (2019-03-09 r76216)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Roleswitch/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'Roleswitch' version '1.21.0'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Depends: includes the non-default packages:
'pracma', 'reshape', 'plotrix', 'microRNA', 'biomaRt', 'Biostrings',
'Biobase', 'DBI'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
* 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 'Roleswitch' can be installed ... WARNING
Found the following significant warnings:
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmp6TxHfC/R.INSTALL18441b632807/Roleswitch/man/roleswitch.Rd:42: file link 'eSet' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmp6TxHfC/R.INSTALL18441b632807/Roleswitch/man/roleswitch.Rd:42: file link 'ExpressionSet' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmp6TxHfC/R.INSTALL18441b632807/Roleswitch/man/roleswitch.Rd:45: file link 'eSet' in package 'Biobase' does not exist and so has been treated as a topic
See 'C:/Users/biocbuild/bbs-3.9-bioc/meat/Roleswitch.Rcheck/00install.out' for details.
* 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
diagnosticPlot: no visible global function definition for 'par'
diagnosticPlot: no visible global function definition for 'axis'
diagnosticPlot: no visible global function definition for 'plot'
getSeedMatrix: no visible global function definition for 'data'
getTranscriptIDwithLongest3UTR: no visible global function definition
for 'aggregate'
roleswitch: no visible global function definition for 'aggregate'
Undefined global functions or variables:
aggregate axis data par plot
Consider adding
importFrom("graphics", "axis", "par", "plot")
importFrom("stats", "aggregate")
importFrom("utils", "data")
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
getSeedMatrix 4.39 0.14 114.57
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
getSeedMatrix 4.44 0.25 133.94
* 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: 1 WARNING, 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.9-bioc/meat/Roleswitch.Rcheck/00check.log'
for details.
Roleswitch.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/Roleswitch_1.21.0.tar.gz && rm -rf Roleswitch.buildbin-libdir && mkdir Roleswitch.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Roleswitch.buildbin-libdir Roleswitch_1.21.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL Roleswitch_1.21.0.zip && rm Roleswitch_1.21.0.tar.gz Roleswitch_1.21.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
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install for i386
* installing *source* package 'Roleswitch' ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'Roleswitch'
finding HTML links ... done
Roleswitch-package html
diagnosticPlot html
getSeedMatrix html
roleswitch html
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmp6TxHfC/R.INSTALL18441b632807/Roleswitch/man/roleswitch.Rd:42: file link 'eSet' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmp6TxHfC/R.INSTALL18441b632807/Roleswitch/man/roleswitch.Rd:42: file link 'ExpressionSet' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmp6TxHfC/R.INSTALL18441b632807/Roleswitch/man/roleswitch.Rd:45: file link 'eSet' in package 'Biobase' does not exist and so has been treated as a topic
tcga_gbm_testdata 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 'Roleswitch' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Roleswitch' as Roleswitch_1.21.0.zip
* DONE (Roleswitch)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'Roleswitch' successfully unpacked and MD5 sums checked
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Roleswitch.Rcheck/examples_i386/Roleswitch-Ex.timings
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Roleswitch.Rcheck/examples_x64/Roleswitch-Ex.timings
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