BioC 3.3: CHECK report for FGNet on linux2.bioconductor.org
This page was generated on 2015-10-27 12:12:29 -0400 (Tue, 27 Oct 2015).
FGNet 3.5.0
Sara Aibar
| Snapshot Date: 2015-10-26 20:20:04 -0400 (Mon, 26 Oct 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/FGNet | | 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: FGNet |
| Version: 3.5.0 |
| Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings FGNet_3.5.0.tar.gz |
| StartedAt: 2015-10-27 03:47:08 -0400 (Tue, 27 Oct 2015) |
| EndedAt: 2015-10-27 03:48:39 -0400 (Tue, 27 Oct 2015) |
| EllapsedTime: 90.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: FGNet.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 FGNet_3.5.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.3-bioc/meat/FGNet.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 ‘FGNet/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘FGNet’ version ‘3.5.0’
* 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 ‘FGNet’ can be installed ... [2s/2s] OK
* checking installed package size ... NOTE
installed size is 7.8Mb
sub-directories of 1Mb or more:
doc 7.3Mb
* 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
FGNet_GUI: no visible global function definition for ‘gtkWindowNew’
FGNet_GUI: no visible global function definition for ‘gtkStatusbar’
FGNet_GUI: no visible global function definition for ‘gtkNotebookNew’
FGNet_GUI: no visible global function definition for
‘gtkNotebookInsertPage’
FGNet_GUI: no visible global function definition for ‘gtkLabelNew’
FGNet_GUI: no visible global function definition for ‘gtkVBoxNew’
FGNet_GUI: no visible global function definition for ‘gSignalConnect’
SOAPQuery: no visible global function definition for
‘basicTextGatherer’
SOAPQuery: no visible global function definition for ‘curlPerform’
SOAPQuery: no visible global function definition for ‘parseHTTPHeader’
actDeactGenes: no visible global function definition for
‘gtkWidgetSetSensitive’
buildGeneSets: no visible global function definition for ‘columns’
buildGeneSets: no visible global function definition for ‘keys’
buildGeneSets: no visible global function definition for ‘select’
buildGeneSets: no visible binding for global variable ‘GO.db’
buildGeneSets: no visible binding for global variable ‘KEGGPATHID2NAME’
buildGeneSets: no visible binding for global variable
‘reactomePATHID2EXTID’
buildGeneSets: no visible binding for global variable
‘reactomeEXTID2PATHID’
buildGeneSets: no visible binding for global variable
‘reactomePATHID2NAME’
fea_david: no visible binding for global variable ‘DAVIDWebService’
fea_david: no visible global function definition for ‘addList’
fea_david : <anonymous>: no visible global function definition for
‘getIdTypes’
fea_david: no visible global function definition for
‘setAnnotationCategories’
fea_david : <anonymous>: no visible global function definition for
‘getAllAnnotationCategoryNames’
fea_david: no visible global function definition for
‘getClusterReportFile’
fea_david: no visible global function definition for ‘getCurlHandle’
fea_david: no visible global function definition for ‘postForm’
fea_gage: no visible global function definition for ‘exprs’
fea_gage: no visible global function definition for ‘gage’
fea_gage: no visible global function definition for ‘esset.grp’
fea_gtLinker_getResults: no visible global function definition for
‘url.exists’
fea_topGO: no visible global function definition for ‘groupGOTerms’
fea_topGO: no visible binding for global variable ‘GOFisherTest’
fea_topGO: no visible binding for global variable ‘annFUN.gene2GO’
fea_topGO: no visible global function definition for ‘getSigGroups’
fea_topGO: no visible global function definition for ‘GenTable’
fea_topGO : <anonymous>: no visible global function definition for
‘genesInTerm’
fea_topGO : <anonymous>: no visible global function definition for
‘sigGenes’
fillCombosColumns : <anonymous>: no visible global function definition
for ‘gtkComboBoxAppendText’
formatResultsFile: no visible binding for global variable ‘rawResults’
format_david: no visible global function definition for ‘getURL’
generateNetwork: no visible global function definition for
‘gtkDialogNewWithButtons’
generateNetwork: no visible binding for global variable
‘GtkResponseType’
generateNetwork: no visible global function definition for ‘gtkLabel’
generateReport: no visible global function definition for
‘gtkDialogNewWithButtons’
generateReport: no visible binding for global variable
‘GtkResponseType’
generateReport: no visible global function definition for ‘gtkLabel’
goTreeLinks: no visible binding for global variable ‘GOBPPARENTS’
goTreeLinks: no visible binding for global variable ‘GOMFPARENTS’
goTreeLinks: no visible binding for global variable ‘GOCCPARENTS’
loadEset: no visible global function definition for ‘gtkCheckButton’
loadFileDialog: no visible global function definition for
‘gtkFileChooserDialog’
loadFileDialog: no visible binding for global variable
‘GtkResponseType’
loadFileDialog: no visible global function definition for
‘gtkTextBufferNew’
loadFileDialog: no visible global function definition for
‘gtkTextBufferSetText’
loadFileDialog: no visible global function definition for
‘gtkTextViewSetBuffer’
loadInstPkg: no visible global function definition for
‘gtkDialogNewWithButtons’
loadInstPkg: no visible binding for global variable ‘GtkResponseType’
loadInstPkg: no visible global function definition for ‘gtkLabel’
loadInstPkg: no visible global function definition for ‘biocLite’
plotGoAncestors: no visible binding for global variable ‘GOBPPARENTS’
plotGoAncestors: no visible binding for global variable ‘GOMFPARENTS’
plotGoAncestors: no visible binding for global variable ‘GOCCPARENTS’
plotGoAncestors : <anonymous>: no visible binding for global variable
‘GOTERM’
plotKegg: no visible global function definition for ‘columns’
plotKegg: no visible global function definition for ‘keys’
plotKegg: no visible global function definition for ‘select’
plotKegg: no visible binding for global variable ‘KEGGPATHID2NAME’
plotKegg: no visible global function definition for ‘download_KEGGfile’
plotKegg: no visible global function definition for ‘parse_XMLfile’
plotKegg: no visible global function definition for ‘plot_profile’
processExpressionField: no visible global function definition for
‘gtkTextViewGetBuffer’
processExpressionField: no visible global function definition for
‘gtkTextBufferGetText’
processExpressionField: no visible global function definition for
‘gtkTextBufferGetStartIter’
processExpressionField: no visible global function definition for
‘gtkTextBufferGetEndIter’
processFile: no visible binding for '<<-' assignment to ‘rawResults’
processFile: no visible binding for global variable ‘rawResults’
processFile: no visible global function definition for
‘gtkWidgetSetSensitive’
processGenesField: no visible global function definition for
‘gtkTextViewGetBuffer’
processGenesField: no visible global function definition for
‘gtkTextBufferGetText’
processGenesField: no visible global function definition for
‘gtkTextBufferGetStartIter’
processGenesField: no visible global function definition for
‘gtkTextBufferGetEndIter’
readFEAresults: no visible global function definition for
‘gtkTextBufferNew’
readFEAresults: no visible global function definition for
‘gtkTextBufferSetText’
readFEAresults: no visible global function definition for
‘gtkTextViewSetBuffer’
readFEAresults: no visible global function definition for
‘gtkDialogNewWithButtons’
readFEAresults: no visible binding for global variable
‘GtkResponseType’
readFEAresults: no visible global function definition for ‘gtkLabel’
refList: no visible global function definition for ‘columns’
refList: no visible global function definition for ‘keys’
selectAPI: no visible global function definition for
‘gtkWidgetSetSensitive’
selectAPI: no visible global function definition for
‘gtkComboBoxAppendText’
selectAPI: no visible global function definition for ‘gtkCheckButton’
selectNetworkTool: no visible global function definition for
‘gtkWidgetSetSensitive’
selectNetworkType: no visible global function definition for
‘gtkWidgetSetSensitive’
selectWs: no visible global function definition for
‘gtkWidgetSetSensitive’
selectWs_fillFields: no visible binding for global variable
‘DAVIDWebService’
selectWs_fillFields: no visible global function definition for
‘getIdTypes’
selectWs_fillFields: no visible global function definition for
‘getAllAnnotationCategoryNames’
selectWs_fillFields: no visible global function definition for
‘gtkComboBoxAppendText’
selectWs_fillFields: no visible global function definition for
‘gtkCheckButton’
selectWs_fillFields: no visible global function definition for
‘gtkWidgetSetSensitive’
selectWs_fillFields: no visible global function definition for
‘gtkDialogNewWithButtons’
selectWs_fillFields: no visible binding for global variable
‘GtkResponseType’
selectWs_fillFields: no visible global function definition for
‘gtkLabel’
submitQuery: no visible global function definition for
‘gtkNotebookGetCurrentPage’
submitQuery: no visible global function definition for
‘gtkDialogNewWithButtons’
submitQuery: no visible binding for global variable ‘GtkResponseType’
submitQuery: no visible global function definition for ‘gtkLabel’
submitQuery: no visible global function definition for
‘gtkWidgetGetSensitive’
submitQuery: no visible global function definition for ‘readList’
submitQuery: no visible global function definition for
‘gtkNotebookSetCurrentPage’
submitQuery: no visible global function definition for
‘gtkTextBufferNew’
submitQuery: no visible global function definition for
‘gtkTextBufferSetText’
submitQuery: no visible global function definition for
‘gtkTextViewSetBuffer’
tabDavid_fill: no visible global function definition for ‘gtkVBox’
tabDavid_fill: no visible global function definition for ‘gtkFrame’
tabDavid_fill: no visible global function definition for ‘gtkHBox’
tabDavid_fill: no visible global function definition for
‘gtkRadioButtonNewWithLabelFromWidget’
tabDavid_fill: no visible global function definition for
‘gtkRadioButton’
tabDavid_fill: no visible global function definition for
‘gtkLinkButtonNewWithLabel’
tabDavid_fill: no visible global function definition for
‘gtkFrameSetShadowType’
tabDavid_fill: no visible binding for global variable ‘GtkShadowType’
tabDavid_fill: no visible global function definition for
‘gtkWidgetSetSensitive’
tabDavid_fill: no visible global function definition for ‘gtkEntryNew’
tabDavid_fill: no visible global function definition for ‘gtkButton’
tabDavid_fill: no visible global function definition for
‘gtkComboBoxNewText’
tabDavid_fill: no visible global function definition for
‘gtkScrolledWindow’
tabDavid_fill: no visible global function definition for ‘gtkVBoxNew’
tabDavid_fill: no visible global function definition for
‘gtkViewportNew’
tabDavid_fill: no visible global function definition for
‘gSignalConnect’
tabFEA_fill: no visible global function definition for ‘gtkHBox’
tabFEA_fill: no visible global function definition for ‘gtkFrame’
tabFEA_fill: no visible global function definition for
‘gtkFrameSetShadowType’
tabFEA_fill: no visible binding for global variable ‘GtkShadowType’
tabFEA_fill: no visible global function definition for ‘gtkEntryNew’
tabFEA_fill: no visible global function definition for ‘gtkVBoxNew’
tabFEA_fill: no visible global function definition for ‘gtkFrameNew’
tabFEA_fill: no visible global function definition for ‘gtkVBox’
tabFEA_fill: no visible global function definition for
‘gtkScrolledWindow’
tabFEA_fill: no visible global function definition for
‘gtkTextViewNewWithBuffer’
tabFEA_fill: no visible global function definition for
‘pangoFontDescriptionFromString’
tabFEA_fill: no visible global function definition for
‘gtkTextBufferNew’
tabFEA_fill: no visible global function definition for
‘gtkTextBufferSetText’
tabFEA_fill: no visible global function definition for
‘gtkTextViewSetBuffer’
tabFEA_fill: no visible global function definition for ‘gtkButton’
tabFEA_fill: no visible global function definition for ‘gSignalConnect’
tabFEA_fill: no visible global function definition for ‘gtkViewportNew’
tabFEA_fill: no visible global function definition for ‘gtkNotebookNew’
tabFEA_fill: no visible binding for '<<-' assignment to ‘rawResults’
tabFEA_fill: no visible global function definition for
‘gtkNotebookInsertPage’
tabFEA_fill: no visible global function definition for ‘gtkLabelNew’
tabGTL_fill: no visible global function definition for ‘gtkVBox’
tabGTL_fill: no visible global function definition for
‘gtkComboBoxNewText’
tabGTL_fill: no visible global function definition for
‘gtkComboBoxAppendText’
tabGTL_fill: no visible global function definition for
‘gtkComboBoxSetTitle’
tabGTL_fill: no visible global function definition for ‘gtkFrame’
tabGTL_fill: no visible global function definition for
‘gtkFrameSetShadowType’
tabGTL_fill: no visible binding for global variable ‘GtkShadowType’
tabGTL_fill: no visible global function definition for ‘gtkVBoxNew’
tabGTL_fill: no visible global function definition for ‘gtkCheckButton’
tabGTL_fill: no visible global function definition for ‘gtkEntryNew’
tabGage_fill: no visible global function definition for ‘gtkVBox’
tabGage_fill: no visible global function definition for ‘gtkFrame’
tabGage_fill: no visible global function definition for ‘gtkVBoxNew’
tabGage_fill: no visible global function definition for
‘gtkFrameSetShadowType’
tabGage_fill: no visible binding for global variable ‘GtkShadowType’
tabGage_fill: no visible global function definition for ‘gtkHBox’
tabGage_fill: no visible global function definition for
‘gtkRadioButtonNewWithLabelFromWidget’
tabGage_fill: no visible global function definition for
‘gtkRadioButton’
tabGage_fill: no visible global function definition for ‘gtkEntryNew’
tabGage_fill: no visible global function definition for ‘gtkButton’
tabGage_fill: no visible global function definition for ‘gtkHBoxNew’
tabGage_fill: no visible global function definition for
‘gtkComboBoxNewText’
tabGage_fill: no visible global function definition for
‘gtkComboBoxAppendText’
tabGage_fill: no visible global function definition for
‘gtkCheckButton’
tabGage_fill: no visible global function definition for
‘gSignalConnect’
tabHelp_fill: no visible global function definition for ‘gtkHBox’
tabHelp_fill: no visible global function definition for ‘gtkVBox’
tabHelp_fill: no visible global function definition for ‘gtkLabel’
tabHelp_fill: no visible global function definition for ‘gtkFrame’
tabHelp_fill: no visible global function definition for
‘gtkFrameSetShadowType’
tabHelp_fill: no visible binding for global variable ‘GtkShadowType’
tabHelp_fill: no visible global function definition for ‘gtkEntryNew’
tabNetwork_common_fill: no visible global function definition for
‘gtkHBox’
tabNetwork_common_fill: no visible global function definition for
‘gtkTable’
tabNetwork_common_fill: no visible global function definition for
‘gtkFrame’
tabNetwork_common_fill: no visible global function definition for
‘gtkFrameSetShadowType’
tabNetwork_common_fill: no visible binding for global variable
‘GtkShadowType’
tabNetwork_common_fill: no visible global function definition for
‘gtkScrolledWindow’
tabNetwork_common_fill: no visible global function definition for
‘gtkTextViewNewWithBuffer’
tabNetwork_common_fill: no visible global function definition for
‘pangoFontDescriptionFromString’
tabNetwork_common_fill: no visible global function definition for
‘gtkTextBufferNew’
tabNetwork_common_fill: no visible global function definition for
‘gtkTextBufferSetText’
tabNetwork_common_fill: no visible global function definition for
‘gtkTextViewSetBuffer’
tabNetwork_common_fill: no visible global function definition for
‘gtkComboBoxNewText’
tabNetwork_common_fill: no visible global function definition for
‘gtkComboBoxAppendText’
tabNetwork_common_fill: no visible global function definition for
‘gtkComboBoxSetTitle’
tabNetwork_common_fill: no visible global function definition for
‘gtkFrameNew’
tabNetwork_common_fill: no visible global function definition for
‘gtkButton’
tabNetwork_common_fill: no visible global function definition for
‘gSignalConnect’
tabNetwork_common_fill: no visible global function definition for
‘gtkVBoxNew’
tabNetwork_common_fill: no visible global function definition for
‘gtkEntryNew’
tabNetwork_common_fill: no visible global function definition for
‘gtkExpander’
tabNetwork_common_fill: no visible global function definition for
‘gtkCheckButton’
tabNetwork_common_fill: no visible global function definition for
‘gtkWidgetSetSensitive’
tabNetwork_fill: no visible global function definition for
‘gtkNotebookNew’
tabNetwork_fill: no visible global function definition for
‘gtkNotebookInsertPage’
tabNetwork_fill: no visible global function definition for
‘gtkLabelNew’
tabNetwork_fill: no visible global function definition for
‘gSignalConnect’
tabOther_fill: no visible global function definition for ‘gtkVBox’
tabOther_fill: no visible global function definition for ‘gtkLabelNew’
tabOther_fill: no visible global function definition for ‘gtkExpander’
tabOther_fill: no visible global function definition for ‘gtkHBox’
tabOther_fill: no visible global function definition for
‘gtkCheckButton’
tabOther_fill: no visible global function definition for
‘gtkComboBoxNewText’
tabOther_fill: no visible global function definition for
‘gtkComboBoxAppendText’
tabOther_fill: no visible global function definition for ‘gtkFrame’
tabOther_fill: no visible global function definition for
‘gtkFrameSetShadowType’
tabOther_fill: no visible binding for global variable ‘GtkShadowType’
tabOther_fill: no visible global function definition for ‘gtkEntryNew’
tabOther_fill: no visible global function definition for ‘gtkButton’
tabOther_fill: no visible global function definition for
‘gSignalConnect’
tabOther_fill: no visible global function definition for
‘gtkWidgetSetSensitive’
tabOther_fill : <anonymous>: no visible global function definition for
‘gtkComboBoxNewText’
tabOther_fill : <anonymous>: no visible global function definition for
‘gtkFrame’
tabOther_fill : <anonymous>: no visible global function definition for
‘gtkFrameSetShadowType’
tabOther_fill : <anonymous>: no visible binding for global variable
‘GtkShadowType’
tabOther_fill : <anonymous>: no visible global function definition for
‘gtkHBox’
tabOther_fill: no visible global function definition for ‘gtkTable’
tabOther_fill: no visible global function definition for ‘gtkLabel’
tabPlotNetwork_fill: no visible global function definition for
‘gtkVBox’
tabPlotNetwork_fill: no visible global function definition for
‘gtkExpanderNew’
tabPlotNetwork_fill: no visible global function definition for
‘gtkHBox’
tabPlotNetwork_fill: no visible global function definition for
‘gtkFrame’
tabPlotNetwork_fill: no visible global function definition for
‘gtkFrameSetShadowType’
tabPlotNetwork_fill: no visible binding for global variable
‘GtkShadowType’
tabPlotNetwork_fill: no visible global function definition for
‘gtkComboBoxNewText’
tabPlotNetwork_fill: no visible global function definition for
‘gtkComboBoxAppendText’
tabPlotNetwork_fill: no visible global function definition for
‘gtkCheckButton’
tabPlotNetwork_fill: no visible global function definition for
‘gtkWidgetSetSensitive’
tabPlotNetwork_fill: no visible global function definition for
‘gtkEntryNew’
tabPlotNetwork_fill: no visible global function definition for
‘gtkButton’
tabPlotNetwork_fill: no visible global function definition for
‘gSignalConnect’
tabReport_fill: no visible global function definition for ‘gtkVBox’
tabReport_fill: no visible global function definition for ‘gtkFrame’
tabReport_fill: no visible global function definition for ‘gtkVBoxNew’
tabReport_fill: no visible global function definition for
‘gtkCheckButton’
tabReport_fill: no visible global function definition for ‘gtkButton’
tabReport_fill: no visible global function definition for
‘gSignalConnect’
tabSubNetwork_fill: no visible global function definition for ‘gtkVBox’
tabSubNetwork_fill: no visible global function definition for ‘gtkHBox’
tabSubNetwork_fill: no visible global function definition for
‘gtkFrame’
tabSubNetwork_fill: no visible global function definition for
‘gtkFrameSetShadowType’
tabSubNetwork_fill: no visible binding for global variable
‘GtkShadowType’
tabSubNetwork_fill: no visible global function definition for
‘gtkEntryNew’
tabSubNetwork_fill: no visible global function definition for
‘gtkComboBoxNewText’
tabSubNetwork_fill: no visible global function definition for
‘gtkCheckButton’
tabSubNetwork_fill: no visible global function definition for
‘gtkFrameNew’
tabSubNetwork_fill: no visible global function definition for
‘gtkButton’
tabSubNetwork_fill: no visible global function definition for
‘gtkTable’
tabSubNetwork_fill: no visible global function definition for
‘gtkLabel’
tabTopGo_fill: no visible global function definition for ‘gtkVBox’
tabTopGo_fill: no visible global function definition for ‘gtkHBoxNew’
tabTopGo_fill: no visible global function definition for ‘gtkFrame’
tabTopGo_fill: no visible global function definition for
‘gtkFrameSetShadowType’
tabTopGo_fill: no visible binding for global variable ‘GtkShadowType’
tabTopGo_fill: no visible global function definition for
‘gtkComboBoxNewText’
tabTopGo_fill: no visible global function definition for
‘gtkComboBoxAppendText’
tabTopGo_fill: no visible global function definition for ‘gtkVBoxNew’
tabTopGo_fill: no visible global function definition for
‘gtkCheckButton’
tabTopGo_fill: no visible global function definition for
‘gtkScrolledWindow’
tabTopGo_fill: no visible global function definition for
‘gtkViewportNew’
tabTopGo_fill: no visible global function definition for ‘gtkEntryNew’
tabTopGo_fill: no visible global function definition for
‘gtkLinkButtonNewWithLabel’
viewFile: no visible binding for global variable ‘rawResults’
Undefined global functions or variables:
DAVIDWebService GO.db GOBPPARENTS GOCCPARENTS GOFisherTest
GOMFPARENTS GOTERM GenTable GtkResponseType GtkShadowType
KEGGPATHID2NAME addList annFUN.gene2GO basicTextGatherer biocLite
columns curlPerform download_KEGGfile esset.grp exprs gSignalConnect
gage genesInTerm getAllAnnotationCategoryNames getClusterReportFile
getCurlHandle getIdTypes getSigGroups getURL groupGOTerms gtkButton
gtkCheckButton gtkComboBoxAppendText gtkComboBoxNewText
gtkComboBoxSetTitle gtkDialogNewWithButtons gtkEntryNew gtkExpander
gtkExpanderNew gtkFileChooserDialog gtkFrame gtkFrameNew
gtkFrameSetShadowType gtkHBox gtkHBoxNew gtkLabel gtkLabelNew
gtkLinkButtonNewWithLabel gtkNotebookGetCurrentPage
gtkNotebookInsertPage gtkNotebookNew gtkNotebookSetCurrentPage
gtkRadioButton gtkRadioButtonNewWithLabelFromWidget gtkScrolledWindow
gtkStatusbar gtkTable gtkTextBufferGetEndIter
gtkTextBufferGetStartIter gtkTextBufferGetText gtkTextBufferNew
gtkTextBufferSetText gtkTextViewGetBuffer gtkTextViewNewWithBuffer
gtkTextViewSetBuffer gtkVBox gtkVBoxNew gtkViewportNew
gtkWidgetGetSensitive gtkWidgetSetSensitive gtkWindowNew keys
pangoFontDescriptionFromString parseHTTPHeader parse_XMLfile
plot_profile postForm rawResults reactomeEXTID2PATHID
reactomePATHID2EXTID reactomePATHID2NAME readList select
setAnnotationCategories sigGenes url.exists
* 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 ... [20s/46s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
plotKegg 3.542 0.025 6.326
analyzeNetwork 1.112 0.044 5.038
fea_gtLinker 0.346 0.027 6.138
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘runTests.R’ [2s/5s]
[2s/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
* DONE
Status: 2 NOTEs
See
‘/home/biocbuild/bbs-3.3-bioc/meat/FGNet.Rcheck/00check.log’
for details.
FGNet.Rcheck/00install.out:
* installing *source* package ‘FGNet’ ...
** 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 (FGNet)
FGNet.Rcheck/FGNet-Ex.timings:
| name | user | system | elapsed
|
| FGNet-package | 0.002 | 0.000 | 0.002 |
|
| FGNet_GUI | 0.001 | 0.000 | 0.001 |
|
| FGNet_report | 0.002 | 0.000 | 0.002 |
|
| analyzeNetwork | 1.112 | 0.044 | 5.038 |
|
| clustersDistance | 0.133 | 0.012 | 3.268 |
|
| fea2incidMat | 1.220 | 0.029 | 3.571 |
|
| fea_david | 3.162 | 0.091 | 3.222 |
|
| fea_gage | 0.001 | 0.000 | 0.001 |
|
| fea_gtLinker | 0.346 | 0.027 | 6.138 |
|
| fea_topGO | 0.001 | 0.000 | 0.001 |
|
| format_david | 2.196 | 0.060 | 2.249 |
|
| format_results | 0.000 | 0.004 | 0.001 |
|
| functionalNetwork | 2.255 | 0.086 | 4.639 |
|
| getTerms | 0.158 | 0.010 | 3.268 |
|
| keywordsTerm | 0.105 | 0.005 | 2.425 |
|
| plotGoAncestors | 4.245 | 0.136 | 4.347 |
|
| plotKegg | 3.542 | 0.025 | 6.326 |
|