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BioC 3.2: CHECK report for ProteomicsAnnotationHubData on zin1

This page was generated on 2016-04-23 10:15:00 -0700 (Sat, 23 Apr 2016).

Package 808/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ProteomicsAnnotationHubData 1.0.1
Laurent Gatto
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/ProteomicsAnnotationHubData
Last Changed Rev: 116293 / Revision: 116712
Last Changed Date: 2016-04-14 13:45:21 -0700 (Thu, 14 Apr 2016)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK [ OK ]UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  NotNeeded  ERROR  skipped  skipped 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: ProteomicsAnnotationHubData
Version: 1.0.1
Command: /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings ProteomicsAnnotationHubData_1.0.1.tar.gz
StartedAt: 2016-04-23 04:06:33 -0700 (Sat, 23 Apr 2016)
EndedAt: 2016-04-23 04:10:13 -0700 (Sat, 23 Apr 2016)
EllapsedTime: 219.4 seconds
RetCode: 0
Status:  OK 
CheckDir: ProteomicsAnnotationHubData.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings ProteomicsAnnotationHubData_1.0.1.tar.gz
###
##############################################################################
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* using log directory ‘/home/biocbuild/bbs-3.2-bioc/meat/ProteomicsAnnotationHubData.Rcheck’
* using R version 3.2.4 Revised (2016-03-16 r70336)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ProteomicsAnnotationHubData/DESCRIPTION’ ... OK
* this is package ‘ProteomicsAnnotationHubData’ version ‘1.0.1’
* 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 ‘ProteomicsAnnotationHubData’ can be installed ... [20s/20s] OK
* checking installed package size ... OK
* 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
* 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
Unexported objects imported by ':::' calls:
  ‘AnnotationHubData:::.httrFileInfo’ ‘GenomeInfoDb:::.taxonomyId’
  See the note in ?`:::` about the use of this operator.
package 'methods' is used but not declared
* 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [10s/10s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’ [11s/11s]
 [11s/11s] 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
  ‘/home/biocbuild/bbs-3.2-bioc/meat/ProteomicsAnnotationHubData.Rcheck/00check.log’
for details.


ProteomicsAnnotationHubData.Rcheck/00install.out:

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

ProteomicsAnnotationHubData.Rcheck/ProteomicsAnnotationHubData-Ex.timings:

nameusersystemelapsed
ProteomicsAnnotationHubData0.0010.0000.001
readPahdFiles0.0040.0000.004
writePahdTemplate0.0060.0000.006