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 3.0: CHECK report for riboSeq on zin1

This page was generated on 2014-09-11 08:56:32 -0700 (Thu, 11 Sep 2014).

Package 706/877HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
riboSeq 0.99.14
Thomas J. Hardcastle
Snapshot Date: 2014-09-10 16:20:30 -0700 (Wed, 10 Sep 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/riboSeq
Last Changed Rev: 93507 / Revision: 94006
Last Changed Date: 2014-08-21 06:21:24 -0700 (Thu, 21 Aug 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 
oaxaca Mac OS X Mavericks (10.9.4) / x86_64  NotNeeded  OK  WARNINGS  OK 

Summary

Package: riboSeq
Version: 0.99.14
Command: /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings riboSeq_0.99.14.tar.gz
StartedAt: 2014-09-11 02:26:02 -0700 (Thu, 11 Sep 2014)
EndedAt: 2014-09-11 02:28:45 -0700 (Thu, 11 Sep 2014)
EllapsedTime: 162.5 seconds
RetCode: 0
Status:  WARNINGS 
CheckDir: riboSeq.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings riboSeq_0.99.14.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.0-bioc/meat/riboSeq.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘riboSeq/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘riboSeq’ version ‘0.99.14’
* 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 ‘riboSeq’ can be installed ... [9s/9s] 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 ... 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:
  ‘lengthDist’
All user-level objects in a package 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 ... 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 ... [55s/55s] OK
Examples with CPU or elapsed time > 5s
                user system elapsed
rnaCounts      8.845  0.004   8.861
plotTranscript 6.857  0.032   6.997
filterHits     6.840  0.044   6.959
frameShift     6.260  0.008   6.340
sliceCounts    6.236  0.004   6.361
frameCounting  6.157  0.016   6.186
plotCDS        6.160  0.008   6.190
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘runTests.R’ [4s/4s]
 [5s/5s] 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

WARNING: There was 1 warning.
See
  ‘/home/biocbuild/bbs-3.0-bioc/meat/riboSeq.Rcheck/00check.log’
for details.

riboSeq.Rcheck/00install.out:

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

riboSeq.Rcheck/riboSeq-Ex.timings:

nameusersystemelapsed
filterHits6.8400.0446.959
findCDS0.2000.0040.206
frameCounting6.1570.0166.186
frameShift6.2600.0086.340
plotCDS6.1600.0086.190
plotTranscript6.8570.0326.997
readRibodata2.4520.0002.457
rnaCounts8.8450.0048.861
sliceCounts6.2360.0046.361