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BioC experimental data: CHECK report for SpikeInSubset on zin1

This page was generated on 2015-04-08 17:40:34 -0700 (Wed, 08 Apr 2015).

Package 198/219HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SpikeInSubset 1.5.1
Rafael A. Irizarry
Snapshot Date: 2015-04-08 06:15:26 -0700 (Wed, 08 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_0/experiment/pkgs/SpikeInSubset
Last Changed Rev: 3075 / Revision: 3266
Last Changed Date: 2014-10-13 14:52:40 -0700 (Mon, 13 Oct 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK [ WARNINGS ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  WARNINGS  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  WARNINGS  OK 

Summary

Package: SpikeInSubset
Version: 1.5.1
Command: /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings SpikeInSubset_1.5.1.tar.gz
StartedAt: 2015-04-08 08:58:57 -0700 (Wed, 08 Apr 2015)
EndedAt: 2015-04-08 09:00:47 -0700 (Wed, 08 Apr 2015)
EllapsedTime: 109.4 seconds
RetCode: 0
Status:  WARNINGS 
CheckDir: SpikeInSubset.Rcheck
Warnings: 3

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings SpikeInSubset_1.5.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.0-data-experiment/meat/SpikeInSubset.Rcheck’
* using R version 3.1.3 (2015-03-09)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SpikeInSubset/DESCRIPTION’ ... OK
* this is package ‘SpikeInSubset’ version ‘1.5.1’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘SpikeInSubset’ can be installed ... [2s/2s] WARNING
Found the following significant warnings:
  Warning: /home/biocbuild/bbs-3.0-data-experiment/meat/SpikeInSubset.Rcheck/00_pkg_src/SpikeInSubset/man/xhyb.Rd: docType ‘instance’ is unrecognized
See ‘/home/biocbuild/bbs-3.0-data-experiment/meat/SpikeInSubset.Rcheck/00install.out’ for details.
* checking installed package size ... NOTE
  installed size is 20.5Mb
  sub-directories of 1Mb or more:
    data  20.4Mb
* 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
* 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 ... NOTE
Packages in Depends field not imported from:
  ‘Biobase’ ‘affy’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* 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 ... WARNING
prepare_Rd: xhyb.Rd: docType ‘instance’ is unrecognized
* 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 ... WARNING
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                           old_size new_size compress
  hgu133a.spikein.xhyb.rda     12Kb      2Kb     gzip
  mas133.rda                  2.2Mb    994Kb       xz
  mas95.rda                   1.3Mb    574Kb       xz
  rma133.rda                  2.2Mb    893Kb       xz
  rma95.rda                   1.3Mb    522Kb       xz
  spikein133.rda              7.3Mb    4.4Mb       xz
  spikein95.rda               6.1Mb    3.6Mb       xz
* checking examples ... NONE
* checking PDF version of manual ... OK
* DONE

WARNING: There were 3 warnings.
NOTE: There were 2 notes.
See
  ‘/home/biocbuild/bbs-3.0-data-experiment/meat/SpikeInSubset.Rcheck/00check.log’
for details.

SpikeInSubset.Rcheck/00install.out:

* installing *source* package ‘SpikeInSubset’ ...
** R
** data
** preparing package for lazy loading
** help
Warning: /home/biocbuild/bbs-3.0-data-experiment/meat/SpikeInSubset.Rcheck/00_pkg_src/SpikeInSubset/man/xhyb.Rd: docType ‘instance’ is unrecognized
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (SpikeInSubset)