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BioC 3.3: CHECK report for HDF5Array on zin2

This page was generated on 2016-10-13 12:46:27 -0700 (Thu, 13 Oct 2016).

Package 539/1210HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
HDF5Array 1.0.2
Hervé Pagès
Snapshot Date: 2016-10-12 17:20:15 -0700 (Wed, 12 Oct 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_3/madman/Rpacks/HDF5Array
Last Changed Rev: 117916 / Revision: 122332
Last Changed Date: 2016-05-26 17:33:55 -0700 (Thu, 26 May 2016)
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
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: HDF5Array
Version: 1.0.2
Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings HDF5Array_1.0.2.tar.gz
StartedAt: 2016-10-13 03:08:27 -0700 (Thu, 13 Oct 2016)
EndedAt: 2016-10-13 03:13:03 -0700 (Thu, 13 Oct 2016)
EllapsedTime: 276.7 seconds
RetCode: 0
Status:  OK 
CheckDir: HDF5Array.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings HDF5Array_1.0.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.3-bioc/meat/HDF5Array.Rcheck’
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘HDF5Array/DESCRIPTION’ ... OK
* this is package ‘HDF5Array’ version ‘1.0.2’
* package encoding: UTF-8
* 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 ‘HDF5Array’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  8.1Mb
  sub-directories of 1Mb or more:
    extdata   7.7Mb
* 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 loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Unexported objects imported by ':::' calls:
  ‘BiocGenerics:::testPackage’ ‘S4Vectors:::anyMissingOrOutside’
  ‘S4Vectors:::sapply_isNULL’
  See the note in ?`:::` about the use of this operator.
* 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 examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘run_unitTests.R’
 OK
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.3-bioc/meat/HDF5Array.Rcheck/00check.log’
for details.


HDF5Array.Rcheck/00install.out:

* installing *source* package ‘HDF5Array’ ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for ‘as.array’ from package ‘base’ in package ‘HDF5Array’
Creating a new generic function for ‘apply’ in package ‘HDF5Array’
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (HDF5Array)

HDF5Array.Rcheck/HDF5Array-Ex.timings:

nameusersystemelapsed
DelayedArray-class2.5080.0442.552
DelayedArray-utils1.9600.0442.007
HDF5Array-class2.1990.1522.349
cbind-methods0.6440.0400.688
setHDF5DumpFile0.3690.0040.374