BioC 3.3: CHECK report for RTopper on linux2.bioconductor.org
This page was generated on 2015-10-27 12:12:01 -0400 (Tue, 27 Oct 2015).
RTopper 1.17.0 Luigi Marchionni
Snapshot Date: 2015-10-26 20:20:04 -0400 (Mon, 26 Oct 2015) | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/RTopper | Last Changed Rev: 109592 / Revision: 109948 | Last Changed Date: 2015-10-13 15:59:53 -0400 (Tue, 13 Oct 2015) |
| linux2.bioconductor.org | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | [ OK ] | |  |
windows2.bioconductor.org | Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | OK | OK |  |
Summary
Package: RTopper |
Version: 1.17.0 |
Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings RTopper_1.17.0.tar.gz |
StartedAt: 2015-10-27 07:48:44 -0400 (Tue, 27 Oct 2015) |
EndedAt: 2015-10-27 07:49:35 -0400 (Tue, 27 Oct 2015) |
EllapsedTime: 51.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: RTopper.Rcheck |
Warnings: 0 |
Command output
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### Running command:
###
### /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings RTopper_1.17.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.3-bioc/meat/RTopper.Rcheck’
* using R Under development (unstable) (2015-09-09 r69333)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RTopper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RTopper’ version ‘1.17.0’
* 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 ‘RTopper’ can be installed ... [2s/2s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
‘limma’
A package should be listed in only one of these fields.
* checking top-level files ... NOTE
File
LICENSE
is not mentioned in the DESCRIPTION file.
* 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 ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [21s/21s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
computeDrStat 14.737 0.02 14.832
* 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: 2 NOTEs
See
‘/home/biocbuild/bbs-3.3-bioc/meat/RTopper.Rcheck/00check.log’
for details.
RTopper.Rcheck/00install.out:
* installing *source* package ‘RTopper’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (RTopper)
RTopper.Rcheck/RTopper-Ex.timings:
name | user | system | elapsed
|
adjustPvalGSE | 0.022 | 0.000 | 0.022 |
|
combineGSE | 0.006 | 0.003 | 0.008 |
|
computeDrStat | 14.737 | 0.020 | 14.832 |
|
convertToDr | 4.508 | 0.000 | 4.519 |
|
dat | 0.084 | 0.008 | 0.092 |
|
fgsList | 0.011 | 0.000 | 0.011 |
|
gseResultsSep | 0.011 | 0.000 | 0.011 |
|
intScores | 0.003 | 0.000 | 0.003 |
|
pheno | 0.093 | 0.008 | 0.101 |
|
runBatchGSE | 0.071 | 0.000 | 0.071 |
|
sepScores | 0.006 | 0.000 | 0.006 |
|