trackViewer 1.2.0
Jianhong Ou
| Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/trackViewer | | Last Changed Rev: 95439 / Revision: 102249 | | Last Changed Date: 2014-10-13 14:38:33 -0700 (Mon, 13 Oct 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 (10.9.5) / x86_64 | NotNeeded | OK | WARNINGS | OK |
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### Running command:
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### /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings trackViewer_1.2.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.0-bioc/meat/trackViewer.Rcheck’
* using R version 3.1.3 (2015-03-09)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘trackViewer/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘trackViewer’ version ‘1.2.0’
* 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 ‘trackViewer’ can be installed ... [32s/33s] 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 ... NOTE
coverageGR : <anonymous> : <anonymous>: no visible global function
definition for ‘IRanges’
geneModelFromTxdb: no visible global function definition for ‘IRanges’
importScore : readWIG: no visible global function definition for
‘CharacterList’
importScore : readWIG: no visible global function definition for
‘IRanges’
importScore : readBED: no visible global function definition for
‘IRanges’
importScore : readFourCols: no visible global function definition for
‘IRanges’
interactiveViewer : importData: no visible global function definition
for ‘gwindow’
interactiveViewer : importData: no visible global function definition
for ‘ggroup’
interactiveViewer : importData: no visible global function definition
for ‘glabel’
interactiveViewer : importData: no visible global function definition
for ‘gfilebrowse’
interactiveViewer : importData : <anonymous>: no visible global
function definition for ‘ggroup’
interactiveViewer : importData : <anonymous>: no visible global
function definition for ‘gedit’
interactiveViewer : importData : <anonymous>: no visible global
function definition for ‘gcheckbox’
interactiveViewer : importData: no visible global function definition
for ‘gframe’
interactiveViewer : importData: no visible global function definition
for ‘gedit’
interactiveViewer : importData: no visible global function definition
for ‘gcheckbox’
interactiveViewer : importData: no visible global function definition
for ‘gradio’
interactiveViewer : importData: no visible global function definition
for ‘gbutton’
interactiveViewer : importData : <anonymous>: no visible global
function definition for ‘IRanges’
interactiveViewer : trackBrowser: no visible global function definition
for ‘IRanges’
interactiveViewer : saveFile: no visible global function definition for
‘gwindow’
interactiveViewer : saveFile: no visible global function definition for
‘ggroup’
interactiveViewer : saveFile: no visible global function definition for
‘glabel’
interactiveViewer : saveFile: no visible global function definition for
‘gfilebrowse’
interactiveViewer : saveFile: no visible global function definition for
‘gedit’
interactiveViewer : saveFile: no visible global function definition for
‘gbutton’
interactiveViewer : xaxisDialog: no visible global function definition
for ‘gwindow’
interactiveViewer : xaxisDialog: no visible global function definition
for ‘ggroup’
interactiveViewer : xaxisDialog: no visible global function definition
for ‘gframe’
interactiveViewer : xaxisDialog: no visible global function definition
for ‘glabel’
interactiveViewer : xaxisDialog: no visible global function definition
for ‘gradio’
interactiveViewer : xaxisDialog: no visible global function definition
for ‘gedit’
interactiveViewer : xaxisDialog: no visible global function definition
for ‘gbutton’
interactiveViewer : margintopDialog: no visible global function
definition for ‘gwindow’
interactiveViewer : margintopDialog: no visible global function
definition for ‘ggroup’
interactiveViewer : margintopDialog: no visible global function
definition for ‘gframe’
interactiveViewer : margintopDialog: no visible global function
definition for ‘glabel’
interactiveViewer : margintopDialog: no visible global function
definition for ‘gedit’
interactiveViewer : margintopDialog: no visible global function
definition for ‘gbutton’
interactiveViewer : trackLabelDialog: no visible global function
definition for ‘gwindow’
interactiveViewer : trackLabelDialog: no visible global function
definition for ‘ggroup’
interactiveViewer : trackLabelDialog: no visible global function
definition for ‘gframe’
interactiveViewer : trackLabelDialog: no visible global function
definition for ‘glabel’
interactiveViewer : trackLabelDialog: no visible global function
definition for ‘gradio’
interactiveViewer : trackLabelDialog: no visible global function
definition for ‘gedit’
interactiveViewer : trackLabelDialog: no visible global function
definition for ‘gbutton’
interactiveViewer : trackDialog: no visible global function definition
for ‘gwindow’
interactiveViewer : trackDialog: no visible global function definition
for ‘ggroup’
interactiveViewer : trackDialog: no visible global function definition
for ‘gframe’
interactiveViewer : trackDialog: no visible global function definition
for ‘gradio’
interactiveViewer : trackDialog: no visible global function definition
for ‘glabel’
interactiveViewer : trackDialog: no visible global function definition
for ‘gedit’
interactiveViewer : trackDialog: no visible global function definition
for ‘gbutton’
locateScale: no visible global function definition for ‘IRanges’
parseWIG : parser : <anonymous>: no visible global function definition
for ‘IRanges’
plotDataTrack: no visible global function definition for ‘IRanges’
* 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [50s/50s] WARNING
Found the following significant warnings:
Warning: 'dbBeginTransaction' is deprecated.
Warning: 'dbBeginTransaction' is deprecated.
Warning: 'dbBeginTransaction' is deprecated.
Warning: 'dbBeginTransaction' is deprecated.
Warning: 'dbBeginTransaction' is deprecated.
Warning: 'dbBeginTransaction' is deprecated.
Warning: 'dbBeginTransaction' is deprecated.
Warning: 'dbBeginTransaction' is deprecated.
Warning: 'dbBeginTransaction' is deprecated.
Warning: 'dbBeginTransaction' is deprecated.
Warning: 'dbBeginTransaction' is deprecated.
Warning: 'dbBeginTransaction' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Examples with CPU or elapsed time > 5s
user system elapsed
geneModelFromTxdb 11.976 0.188 12.207
trackViewer-package 10.869 0.256 11.144
viewTracks 7.189 0.172 7.420
* checking for unstated dependencies in tests ... OK
* checking tests ...
Running ‘runTests.R’ [16s/17s]
[17s/17s] 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
WARNING: There was 1 warning.
NOTE: There was 1 note.
See
‘/home/biocbuild/bbs-3.0-bioc/meat/trackViewer.Rcheck/00check.log’
for details.