BioC 3.3: CHECK report for coRNAi on linux2.bioconductor.org
This page was generated on 2015-10-27 12:11:51 -0400 (Tue, 27 Oct 2015).
coRNAi 1.21.0 Elin Axelsson
Snapshot Date: 2015-10-26 20:20:04 -0400 (Mon, 26 Oct 2015) | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/coRNAi | 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: coRNAi |
Version: 1.21.0 |
Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings coRNAi_1.21.0.tar.gz |
StartedAt: 2015-10-27 02:59:36 -0400 (Tue, 27 Oct 2015) |
EndedAt: 2015-10-27 03:01:55 -0400 (Tue, 27 Oct 2015) |
EllapsedTime: 139.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: coRNAi.Rcheck |
Warnings: 0 |
Command output
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### Running command:
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### /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings coRNAi_1.21.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.3-bioc/meat/coRNAi.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 ‘coRNAi/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘coRNAi’ version ‘1.21.0’
* 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 ‘coRNAi’ can be installed ... [13s/13s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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
Packages in Depends field not imported from:
‘cellHTS2’ ‘limma’ ‘locfit’
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
There are ::: calls to the package's namespace in its code. A package
almost never needs to use ::: for its own objects:
‘moMatrix’
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
BoxPlotShorth: no visible binding for global variable ‘shorth’
MainFitPlot: no visible global function definition for ‘locfit’
MainFitPlot: no visible global function definition for ‘lfknots’
cellHTS2df: no visible global function definition for ‘fData’
cellHTS2df: no visible global function definition for ‘Data’
df2lmFit: no visible global function definition for ‘lmFit’
estpart: no visible binding for global variable ‘shorth’
interactiontable: no visible global function definition for ‘topTable’
interactiontable: no visible global function definition for ‘eBayes’
Undefined global functions or variables:
Data eBayes fData lfknots lmFit locfit shorth topTable
* 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 ... [18s/18s] 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: 3 NOTEs
See
‘/home/biocbuild/bbs-3.3-bioc/meat/coRNAi.Rcheck/00check.log’
for details.
coRNAi.Rcheck/00install.out:
* installing *source* package ‘coRNAi’ ...
** 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 (coRNAi)
coRNAi.Rcheck/coRNAi-Ex.timings:
name | user | system | elapsed
|
BoxPlotShorth | 0.08 | 0.00 | 0.08 |
|
InteractGraph | 0.000 | 0.000 | 0.001 |
|
InteractLevelPlot | 0.159 | 0.011 | 0.173 |
|
MainFitPlot | 0.014 | 0.004 | 0.017 |
|
PlotHeatmap | 0.11 | 0.00 | 0.11 |
|
Pplot | 0.003 | 0.000 | 0.003 |
|
cellHTS2df | 0.056 | 0.000 | 0.056 |
|
cortestmatrices | 4.787 | 0.012 | 4.799 |
|
data2graph | 0 | 0 | 0 |
|
df2array | 0.090 | 0.004 | 0.093 |
|
df2fitmatrix | 0.134 | 0.004 | 0.138 |
|
df2lmFit | 0.159 | 0.000 | 0.159 |
|
estmodel | 0.435 | 0.000 | 0.435 |
|
faultyscreen | 0.110 | 0.000 | 0.109 |
|
interactiontable | 0.018 | 0.000 | 0.018 |
|
key | 0.004 | 0.000 | 0.003 |
|
repplots | 4.539 | 0.091 | 4.631 |
|
rlmmain | 0.150 | 0.003 | 0.155 |
|
screen1_raw | 0.016 | 0.000 | 0.017 |
|
screen2_raw | 0.152 | 0.000 | 0.152 |
|
signalplots | 0.137 | 0.000 | 0.136 |
|
tt2matrix | 0.003 | 0.000 | 0.002 |
|
updateDf | 0.106 | 0.000 | 0.105 |
|
weightDf | 0.101 | 0.000 | 0.102 |
|