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BioC 3.5: CHECK report for RTN on tokay2

This page was generated on 2017-08-16 13:22:33 -0400 (Wed, 16 Aug 2017).

Package 1161/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RTN 1.14.1
Mauro Castro
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/RTN
Last Changed Rev: 131251 / Revision: 131943
Last Changed Date: 2017-07-15 15:39:32 -0400 (Sat, 15 Jul 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: RTN
Version: 1.14.1
Command: rm -rf RTN.buildbin-libdir RTN.Rcheck && mkdir RTN.buildbin-libdir RTN.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=RTN.buildbin-libdir RTN_1.14.1.tar.gz >RTN.Rcheck\00install.out 2>&1 && cp RTN.Rcheck\00install.out RTN-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=RTN.buildbin-libdir --install="check:RTN-install.out" --force-multiarch --no-vignettes --timings RTN_1.14.1.tar.gz
StartedAt: 2017-08-16 02:40:06 -0400 (Wed, 16 Aug 2017)
EndedAt: 2017-08-16 02:45:00 -0400 (Wed, 16 Aug 2017)
EllapsedTime: 294.2 seconds
RetCode: 0
Status:  OK  
CheckDir: RTN.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf RTN.buildbin-libdir RTN.Rcheck && mkdir RTN.buildbin-libdir RTN.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=RTN.buildbin-libdir RTN_1.14.1.tar.gz >RTN.Rcheck\00install.out 2>&1 && cp RTN.Rcheck\00install.out RTN-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=RTN.buildbin-libdir --install="check:RTN-install.out" --force-multiarch --no-vignettes --timings RTN_1.14.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/RTN.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 'RTN/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'RTN' version '1.14.1'
* 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 'RTN' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 10.4Mb
  sub-directories of 1Mb or more:
    data   9.6Mb
* 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 ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'runTests.R'
 OK
** running tests for arch 'x64' ...
  Running 'runTests.R'
 OK
* 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-3.5-bioc/meat/RTN.Rcheck/00check.log'
for details.


RTN.Rcheck/00install.out:


install for i386

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

install for x64

* installing *source* package 'RTN' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'RTN' as RTN_1.14.1.zip
* DONE (RTN)

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

nameusersystemelapsed
AVS-class000
RTN.data1.330.031.36
TNA-class000
TNI-class1.200.041.25
TNI.data0.230.000.24
avs.evse000
avs.get000
avs.plot1000
avs.plot2000
avs.preprocess.LD1000gRel20130502000
avs.preprocess.LDHapMapRel27000
avs.vse000
tna.get1.380.021.39
tna.graph1.520.031.55
tna.gsea11.090.051.14
tna.gsea21.220.071.28
tna.mra1.310.011.33
tna.overlap1.050.031.08
tna.plot.gsea11.010.031.05
tna.plot.gsea21.030.041.06
tna.shadow1.020.011.03
tna.synergy1.310.021.33
tni.bootstrap1.170.001.17
tni.conditional1.070.001.06
tni.dpi.filter1.260.011.28
tni.get1.130.021.15
tni.graph1.060.001.06
tni.gsea21.050.051.09
tni.permutation1.030.031.06
tni.preprocess1.980.062.05
tni2tna.preprocess1.240.011.25

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

nameusersystemelapsed
AVS-class000
RTN.data1.440.041.49
TNA-class000
TNI-class1.690.031.72
TNI.data0.230.020.25
avs.evse000
avs.get000
avs.plot1000
avs.plot2000
avs.preprocess.LD1000gRel20130502000
avs.preprocess.LDHapMapRel27000
avs.vse0.000.020.02
tna.get0.960.010.97
tna.graph1.030.031.06
tna.gsea11.090.031.12
tna.gsea21.420.001.43
tna.mra1.000.021.02
tna.overlap0.950.000.95
tna.plot.gsea10.940.000.94
tna.plot.gsea20.920.010.94
tna.shadow0.960.040.98
tna.synergy1.170.001.17
tni.bootstrap1.200.031.23
tni.conditional0.970.020.99
tni.dpi.filter1.360.061.42
tni.get0.980.021.00
tni.graph0.970.000.97
tni.gsea20.950.000.96
tni.permutation0.920.010.93
tni.preprocess2.380.022.39
tni2tna.preprocess1.140.031.18