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BioC experimental data: CHECK report for HSMMSingleCell on moscato2

This page was generated on 2016-10-08 19:31:36 -0700 (Sat, 08 Oct 2016).

Package 142/293HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
HSMMSingleCell 0.106.2
Cole Trapnell
Snapshot Date: 2016-10-08 07:15:25 -0700 (Sat, 08 Oct 2016)
URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_3/experiment/pkgs/HSMMSingleCell
Last Changed Rev: 3774 / Revision: 3935
Last Changed Date: 2016-05-15 13:23:24 -0700 (Sun, 15 May 2016)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  WARNINGS UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ WARNINGS ] OK 

Summary

Package: HSMMSingleCell
Version: 0.106.2
Command: rm -rf HSMMSingleCell.buildbin-libdir HSMMSingleCell.Rcheck && mkdir HSMMSingleCell.buildbin-libdir HSMMSingleCell.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=HSMMSingleCell.buildbin-libdir HSMMSingleCell_0.106.2.tar.gz >HSMMSingleCell.Rcheck\00install.out 2>&1 && cp HSMMSingleCell.Rcheck\00install.out HSMMSingleCell-install.out && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=HSMMSingleCell.buildbin-libdir --install="check:HSMMSingleCell-install.out" --force-multiarch --no-vignettes --timings HSMMSingleCell_0.106.2.tar.gz
StartedAt: 2016-10-08 12:35:41 -0700 (Sat, 08 Oct 2016)
EndedAt: 2016-10-08 12:37:18 -0700 (Sat, 08 Oct 2016)
EllapsedTime: 97.1 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: HSMMSingleCell.Rcheck
Warnings: 2

Command output

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### Running command:
###
###   rm -rf HSMMSingleCell.buildbin-libdir HSMMSingleCell.Rcheck && mkdir HSMMSingleCell.buildbin-libdir HSMMSingleCell.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=HSMMSingleCell.buildbin-libdir HSMMSingleCell_0.106.2.tar.gz >HSMMSingleCell.Rcheck\00install.out 2>&1 && cp HSMMSingleCell.Rcheck\00install.out HSMMSingleCell-install.out  && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=HSMMSingleCell.buildbin-libdir --install="check:HSMMSingleCell-install.out" --force-multiarch --no-vignettes --timings HSMMSingleCell_0.106.2.tar.gz
###
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* using log directory 'E:/biocbld/bbs-3.3-data-experiment/meat/HSMMSingleCell.Rcheck'
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'HSMMSingleCell/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'HSMMSingleCell' version '0.106.2'
* 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 'HSMMSingleCell' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 16.1Mb
  sub-directories of 1Mb or more:
    data  16.0Mb
* checking package 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 ... WARNING
Undocumented data sets:
  'HSMM_expr_matrix' 'HSMM_sample_sheet' 'HSMM_gene_annotation'
All user-level objects in a package should have documentation entries.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* 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 ... WARNING
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                           old_size new_size compress
  HSMM_expr_matrix.rda       15.6Mb    9.0Mb       xz
  HSMM_gene_annotation.rda    451Kb    288Kb       xz
* checking files in 'vignettes' ... NOTE
The following files look like leftovers/mistakes:
  'HSMMSingleCell-vignette.bbl', 'HSMMSingleCell-vignette.log',
  'HSMMSingleCell-vignette.toc'
Please remove them from your package.
* checking examples ... NONE
* checking PDF version of manual ... OK
* DONE

Status: 2 WARNINGs, 2 NOTEs
See
  'E:/biocbld/bbs-3.3-data-experiment/meat/HSMMSingleCell.Rcheck/00check.log'
for details.


HSMMSingleCell.Rcheck/00install.out:


install for i386

* installing *source* package 'HSMMSingleCell' ...
** R
** data
** 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 'HSMMSingleCell' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'HSMMSingleCell' as HSMMSingleCell_0.106.2.zip
* DONE (HSMMSingleCell)