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BioC 3.5: CHECK report for microRNA on tokay2

This page was generated on 2017-08-16 13:20:03 -0400 (Wed, 16 Aug 2017).

Package 816/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
microRNA 1.34.0
"James F. Reid"
Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/microRNA
Last Changed Rev: 129126 / Revision: 131943
Last Changed Date: 2017-04-24 15:25:24 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: microRNA
Version: 1.34.0
Command: rm -rf microRNA.buildbin-libdir microRNA.Rcheck && mkdir microRNA.buildbin-libdir microRNA.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=microRNA.buildbin-libdir microRNA_1.34.0.tar.gz >microRNA.Rcheck\00install.out 2>&1 && cp microRNA.Rcheck\00install.out microRNA-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=microRNA.buildbin-libdir --install="check:microRNA-install.out" --force-multiarch --no-vignettes --timings microRNA_1.34.0.tar.gz
StartedAt: 2017-08-16 01:14:19 -0400 (Wed, 16 Aug 2017)
EndedAt: 2017-08-16 01:16:13 -0400 (Wed, 16 Aug 2017)
EllapsedTime: 114.1 seconds
RetCode: 0
Status:  OK  
CheckDir: microRNA.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf microRNA.buildbin-libdir microRNA.Rcheck && mkdir microRNA.buildbin-libdir microRNA.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=microRNA.buildbin-libdir microRNA_1.34.0.tar.gz >microRNA.Rcheck\00install.out 2>&1 && cp microRNA.Rcheck\00install.out microRNA-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=microRNA.buildbin-libdir --install="check:microRNA-install.out" --force-multiarch --no-vignettes --timings microRNA_1.34.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/microRNA.Rcheck'
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'microRNA/DESCRIPTION' ... OK
* this is package 'microRNA' version '1.34.0'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package which this enhances but not available for checking: 'Rlibstree'
* 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 'microRNA' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  7.4Mb
  sub-directories of 1Mb or more:
    data      5.4Mb
    extdata   2.0Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  'Biostrings'
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 ... 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 data for ASCII and uncompressed saves ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
           user system elapsed
matchSeeds  5.5   0.02    5.52
** running examples for arch 'x64' ... OK
* checking PDF version of manual ... OK
* DONE

Status: 3 NOTEs
See
  'C:/Users/biocbuild/bbs-3.5-bioc/meat/microRNA.Rcheck/00check.log'
for details.


microRNA.Rcheck/00install.out:


install for i386

* installing *source* package 'microRNA' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded

install for x64

* installing *source* package 'microRNA' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'microRNA' as microRNA_1.34.0.zip
* DONE (microRNA)

microRNA.Rcheck/examples_i386/microRNA-Ex.timings:

nameusersystemelapsed
RNA2DNA000
get_selfhyb_subseq000
hsSeqs0.000.020.01
hsTargets0.680.030.72
matchSeeds5.500.025.52
mmSeqs000
mmTargets1.880.041.92
s3utr0.010.000.02
seedRegions000

microRNA.Rcheck/examples_x64/microRNA-Ex.timings:

nameusersystemelapsed
RNA2DNA000
get_selfhyb_subseq000
hsSeqs0.010.000.01
hsTargets0.690.000.69
matchSeeds3.690.093.78
mmSeqs0.000.020.02
mmTargets1.860.051.90
s3utr000
seedRegions0.010.000.02