Back to the "Multiple platform build/check report" A  B  C  D  E  F  G  H  I  J  K  L  M  N  O  P  Q  R [S] T  U  V  W  X  Y  Z 

BioC 2.12: CHECK report for SplicingGraphs on moscato2

This page was generated on 2013-10-09 09:39:20 -0700 (Wed, 09 Oct 2013).

Package 616/671HostnameOS / ArchBUILDCHECKBUILD BIN
SplicingGraphs 1.0.4
H. Pages
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/SplicingGraphs
Last Changed Rev: 77220 / Revision: 81334
Last Changed Date: 2013-06-05 13:08:16 -0700 (Wed, 05 Jun 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  WARNINGS 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ WARNINGS ] OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  WARNINGS  OK 

Summary

Package: SplicingGraphs
Version: 1.0.4
Command: rm -rf SplicingGraphs.buildbin-libdir && mkdir SplicingGraphs.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=SplicingGraphs.buildbin-libdir SplicingGraphs_1.0.4.tar.gz >SplicingGraphs-install.out 2>&1 && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD check --library=SplicingGraphs.buildbin-libdir --install="check:SplicingGraphs-install.out" --force-multiarch --no-vignettes --timings SplicingGraphs_1.0.4.tar.gz && mv SplicingGraphs.buildbin-libdir/* SplicingGraphs.Rcheck/ && rmdir SplicingGraphs.buildbin-libdir
StartedAt: 2013-10-09 04:21:49 -0700 (Wed, 09 Oct 2013)
EndedAt: 2013-10-09 04:37:59 -0700 (Wed, 09 Oct 2013)
EllapsedTime: 970.4 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: SplicingGraphs.Rcheck
Warnings: 2

Command output

* using log directory 'E:/biocbld/bbs-2.12-bioc/meat/SplicingGraphs.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'SplicingGraphs/DESCRIPTION' ... OK
* this is package 'SplicingGraphs' version '1.0.4'
* 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 'SplicingGraphs' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 19.6Mb
  sub-directories of 1Mb or more:
    doc      15.5Mb
    extdata   3.7Mb
* 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
* 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 for unstated 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 code objects:
  'reportReads'
Undocumented S4 methods:
  generic 'reportReads' and siglist 'SplicingGraphs'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See the chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... WARNING
Objects in \usage without \alias in documentation object 'countReads-methods':
  'reportReads'

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See the chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ...
** running examples for arch 'i386' ... [262s] OK
Examples with CPU or elapsed time > 5s
                         user system elapsed
plotTranscripts-methods 39.25   0.04   39.53
toy_data                20.93   0.04   20.99
countReads-methods      12.91   0.05   13.41
sgedges-methods          7.63   0.00    7.84
bubbles-methods          7.25   0.02    7.27
assignReads              6.95   0.03    7.07
sgedgesByGene-methods    5.24   0.00    5.40
rsgedgesByGene-methods   5.10   0.02    5.11
txpath-methods           5.00   0.01    5.02
** running examples for arch 'x64' ... [327s] OK
Examples with CPU or elapsed time > 5s
                         user system elapsed
plotTranscripts-methods 48.17   0.11   48.37
toy_data                26.27   0.04   26.33
countReads-methods      13.29   0.03   13.32
sgedges-methods          8.64   0.02    8.68
bubbles-methods          7.77   0.01    7.79
rsgedgesByGene-methods   7.15   0.00    7.22
assignReads              6.73   0.02    6.76
SplicingGraphs-class     5.71   0.42    6.17
sgedgesByGene-methods    5.83   0.00    6.30
* checking for unstated dependencies in tests ... OK
* checking tests ...
** running tests for arch 'i386'
  Running 'run_unitTests.R' [20s]
 [21s] OK
** running tests for arch 'x64'
  Running 'run_unitTests.R' [23s]
 [23s] 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

WARNING: There were 2 warnings.
NOTE: There was 1 note.
See
  'E:/biocbld/bbs-2.12-bioc/meat/SplicingGraphs.Rcheck/00check.log'
for details.

SplicingGraphs.Rcheck/00install.out:


install for i386

* installing *source* package 'SplicingGraphs' ...
** R
** inst
** 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 'SplicingGraphs' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SplicingGraphs' as SplicingGraphs_1.0.4.zip
* DONE (SplicingGraphs)