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BioC 3.2: CHECK report for BubbleTree on windows1.bioconductor.org

This page was generated on 2015-10-27 17:31:59 -0400 (Tue, 27 Oct 2015).

Package 126/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BubbleTree 2.0.0
Wei Zhu
Snapshot Date: 2015-10-26 19:24:07 -0400 (Mon, 26 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/BubbleTree
Last Changed Rev: 109589 / Revision: 109947
Last Changed Date: 2015-10-13 15:36:05 -0400 (Tue, 13 Oct 2015)
linux1.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
windows1.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: BubbleTree
Version: 2.0.0
Command: rm -rf BubbleTree.buildbin-libdir BubbleTree.Rcheck && mkdir BubbleTree.buildbin-libdir BubbleTree.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=BubbleTree.buildbin-libdir BubbleTree_2.0.0.tar.gz >BubbleTree.Rcheck\00install.out 2>&1 && cp BubbleTree.Rcheck\00install.out BubbleTree-install.out && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=BubbleTree.buildbin-libdir --install="check:BubbleTree-install.out" --force-multiarch --no-vignettes --timings BubbleTree_2.0.0.tar.gz
StartedAt: 2015-10-27 00:12:31 -0400 (Tue, 27 Oct 2015)
EndedAt: 2015-10-27 00:18:02 -0400 (Tue, 27 Oct 2015)
EllapsedTime: 331.1 seconds
RetCode: 0
Status:  OK  
CheckDir: BubbleTree.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf BubbleTree.buildbin-libdir BubbleTree.Rcheck && mkdir BubbleTree.buildbin-libdir BubbleTree.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=BubbleTree.buildbin-libdir BubbleTree_2.0.0.tar.gz >BubbleTree.Rcheck\00install.out 2>&1 && cp BubbleTree.Rcheck\00install.out BubbleTree-install.out  && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=BubbleTree.buildbin-libdir --install="check:BubbleTree-install.out" --force-multiarch --no-vignettes --timings BubbleTree_2.0.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/biocbld/bbs-3.2-bioc/meat/BubbleTree.Rcheck'
* using R version 3.2.2 Patched (2015-08-16 r69094)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'BubbleTree/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'BubbleTree' version '2.0.0'
* 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 'BubbleTree' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 24.0Mb
  sub-directories of 1Mb or more:
    data  22.7Mb
    doc    1.0Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Title field: should not end in a period.
It is recommended to use 'given' instead of 'middle'.
* 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
** checking loading without being on the library search path ... 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 loading without being on the library search path ... 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' ... [30s] OK
Examples with CPU or elapsed time > 5s
                user system elapsed
heteroLociTrack 6.67   0.13     6.8
** running examples for arch 'x64' ... [32s] OK
Examples with CPU or elapsed time > 5s
                user system elapsed
heteroLociTrack 6.49   0.19    6.67
* 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:/biocbld/bbs-3.2-bioc/meat/BubbleTree.Rcheck/00check.log'
for details.


BubbleTree.Rcheck/00install.out:


install for i386

* installing *source* package 'BubbleTree' ...
It is recommended to use 'given' instead of 'middle'.
** R
** data
** inst
** preparing package for lazy loading
Found more than one class "GenomicRanges" in cache; using the first, from namespace 'GenomicRanges'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'BubbleTree' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'BubbleTree' as BubbleTree_2.0.0.zip
* DONE (BubbleTree)

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

nameusersystemelapsed
Annotate000
BTreePlotter0.160.000.15
BTreePredictor0.020.000.02
RscoreTrack0.870.010.90
TrackPlotter000
annoByGenesAndCyto0.990.051.04
bafTrack0.320.010.34
btcompare000
btpredict3.550.003.55
drawBTree0.560.040.60
drawBubbles0.300.010.31
drawFeatures1.230.021.26
getTracks0.890.040.94
heteroLociTrack6.670.136.80
info3.280.053.33
loadRBD0.100.000.09
saveXLS0.150.011.80
trackBTree0.420.020.44
xyTrack0.380.000.37

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

nameusersystemelapsed
Annotate000
BTreePlotter0.180.000.19
BTreePredictor000
RscoreTrack0.810.000.81
TrackPlotter000
annoByGenesAndCyto0.910.030.94
bafTrack0.330.020.34
btcompare000
btpredict4.360.034.39
drawBTree0.330.000.33
drawBubbles0.330.000.33
drawFeatures1.470.001.47
getTracks101
heteroLociTrack6.490.196.67
info3.860.033.89
loadRBD0.080.000.08
saveXLS0.140.010.67
trackBTree0.470.000.47
xyTrack0.250.000.25