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BioC 3.1: CHECK report for flowFlowJo on zin2

This page was generated on 2015-03-20 09:37:47 -0700 (Fri, 20 Mar 2015).

Package 320/981HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowFlowJo 1.25.0
John J. Gosink
Snapshot Date: 2015-03-19 17:20:19 -0700 (Thu, 19 Mar 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowFlowJo
Last Changed Rev: 95443 / Revision: 100902
Last Changed Date: 2014-10-13 14:47:41 -0700 (Mon, 13 Oct 2014)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK [ OK ]UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: flowFlowJo
Version: 1.25.0
Command: /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD check --no-vignettes --timings flowFlowJo_1.25.0.tar.gz
StartedAt: 2015-03-20 00:36:47 -0700 (Fri, 20 Mar 2015)
EndedAt: 2015-03-20 00:37:39 -0700 (Fri, 20 Mar 2015)
EllapsedTime: 51.9 seconds
RetCode: 0
Status:  OK 
CheckDir: flowFlowJo.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD check --no-vignettes --timings flowFlowJo_1.25.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.1-bioc/meat/flowFlowJo.Rcheck’
* using R Under development (unstable) (2015-03-08 r67960)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowFlowJo/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowFlowJo’ version ‘1.25.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘flowFlowJo’ can be installed ... [4s/4s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Title field: should not end in a period.
* 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 loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Package in Depends field not imported from: ‘MASS’
  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 ... NOTE
File ‘flowFlowJo/R/zzz.R’:
  .onLoad calls:
    packageStartupMessage(msg)

See section ‘Good practice’ in '?.onAttach'.
* 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [10s/10s] 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: 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.1-bioc/meat/flowFlowJo.Rcheck/00check.log’
for details.

flowFlowJo.Rcheck/00install.out:

* installing *source* package ‘flowFlowJo’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (flowFlowJo)

flowFlowJo.Rcheck/flowFlowJo-Ex.timings:

nameusersystemelapsed
collectSummaryFlowInfo2.9920.0163.010
createFlowReport2.9490.0032.956
flowFlowJo-package0.4340.0000.439
getFlowJoGates0.4880.0000.491
getFlowJoSummary0.4950.0000.495
readFlowJoList0.4690.0080.477
simplifyGateNames0.0010.0000.001