Back to Multiple platform build/check report for BioC 3.6 |
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This page was generated on 2018-04-12 13:41:49 -0400 (Thu, 12 Apr 2018).
Package 1138/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
RCy3 1.8.0 Tanja Muetze
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | WARNINGS | ![]() | ||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | ![]() | ||||||
veracruz1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ WARNINGS ] | OK | ![]() |
Package: RCy3 |
Version: 1.8.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings RCy3_1.8.0.tar.gz |
StartedAt: 2018-04-12 08:25:08 -0400 (Thu, 12 Apr 2018) |
EndedAt: 2018-04-12 08:26:06 -0400 (Thu, 12 Apr 2018) |
EllapsedTime: 58.1 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: RCy3.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings RCy3_1.8.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/RCy3.Rcheck’ * using R version 3.4.4 (2018-03-15) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘RCy3/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘RCy3’ version ‘1.8.0’ * 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 ‘RCy3’ can be installed ... 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 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 .BBSOverride: no visible global function definition for ‘as’ is.classic.graph: no visible global function definition for ‘is’ is.multiGraph: no visible global function definition for ‘is’ Undefined global functions or variables: as is Consider adding importFrom("methods", "as", "is") to your NAMESPACE file (and ensure that your DESCRIPTION Imports field contains 'methods'). * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... WARNING Undocumented code objects: ‘copyCytoscapeNetwork’ ‘renameCytoscapeNetwork’ ‘selectAllEdges’ ‘selectAllNodes’ Undocumented S4 methods: generic 'copyCytoscapeNetwork' and siglist 'CytoscapeWindowClass' generic 'renameCytoscapeNetwork' and siglist 'CytoscapeWindowClass' generic 'selectAllEdges' and siglist 'CytoscapeWindowClass' generic 'selectAllNodes' and siglist 'CytoscapeWindowClass' All user-level objects in a package (including S4 classes and methods) should have documentation entries. See 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 sizes of PDF files under ‘inst/doc’ ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘runTests.R’ 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: 1 WARNING, 1 NOTE See ‘/Users/biocbuild/bbs-3.6-bioc/meat/RCy3.Rcheck/00check.log’ for details.
RCy3.Rcheck/00install.out
* installing *source* package ‘RCy3’ ... ** R ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (RCy3)
RCy3.Rcheck/tests/runTests.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On" Copyright (C) 2018 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin15.6.0 (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > # tests disabled as the Bioconductor build system no longer supports interactive sessions > #require(RCy3) || stop("unable to load RCy3") > #BiocGenerics:::testPackage('RCy3') > > proc.time() user system elapsed 0.241 0.043 0.263
RCy3.Rcheck/RCy3-Ex.timings
name | user | system | elapsed | |
CytoscapeConnection | 0.001 | 0.000 | 0.001 | |
CytoscapeConnectionClass-class | 0.001 | 0.000 | 0.000 | |
CytoscapeWindow | 0.001 | 0.000 | 0.001 | |
CytoscapeWindowClass-class | 0.001 | 0.001 | 0.001 | |
addCyEdge | 0.001 | 0.000 | 0.001 | |
addCyNode | 0.001 | 0.000 | 0.001 | |
addGraphToGraph | 0.001 | 0.001 | 0.002 | |
clearSelection | 0.001 | 0.000 | 0.001 | |
copyVisualStyle | 0.001 | 0.000 | 0.002 | |
createWindow | 0.000 | 0.000 | 0.001 | |
createWindowFromSelection | 0.000 | 0.000 | 0.001 | |
cy2.edge.names | 0.001 | 0.000 | 0.001 | |
cyPlot | 0.001 | 0.000 | 0.002 | |
deleteAllWindows | 0.001 | 0.000 | 0.001 | |
deleteEdgeAttribute | 0.001 | 0.001 | 0.002 | |
deleteNodeAttribute | 0.001 | 0.000 | 0.002 | |
deleteSelectedEdges | 0 | 0 | 0 | |
deleteSelectedNodes | 0.001 | 0.001 | 0.001 | |
deleteWindow | 0.001 | 0.000 | 0.002 | |
demoSimpleGraph | 0.001 | 0.000 | 0.001 | |
displayGraph | 0.001 | 0.001 | 0.001 | |
dockPanel | 0.001 | 0.000 | 0.001 | |
eda | 0.001 | 0.000 | 0.001 | |
eda.names | 0.001 | 0.000 | 0.001 | |
existing.CytoscapeWindow | 0.001 | 0.000 | 0.001 | |
fitContent | 0.001 | 0.000 | 0.001 | |
fitSelectedContent | 0.001 | 0.001 | 0.001 | |
floatPanel | 0 | 0 | 0 | |
getAdjacentEdgeNames | 0.001 | 0.000 | 0.001 | |
getAllEdgeAttributes | 0.001 | 0.000 | 0.001 | |
getAllEdges | 0.000 | 0.000 | 0.001 | |
getAllNodeAttributes | 0.001 | 0.000 | 0.002 | |
getAllNodes | 0.001 | 0.001 | 0.001 | |
getArrowShapes | 0.001 | 0.000 | 0.001 | |
getAttributeClassNames | 0.000 | 0.000 | 0.001 | |
getCenter | 0.001 | 0.000 | 0.001 | |
getDefaultBackgroundColor | 0.001 | 0.000 | 0.001 | |
getDefaultEdgeReverseSelectionColor | 0.001 | 0.000 | 0.001 | |
getDefaultEdgeSelectionColor | 0.001 | 0.000 | 0.001 | |
getDefaultNodeReverseSelectionColor | 0.001 | 0.000 | 0.001 | |
getDefaultNodeSelectionColor | 0.001 | 0.000 | 0.001 | |
getDirectlyModifiableVisualProperties | 0.001 | 0.000 | 0.001 | |
getEdgeAttribute | 0.002 | 0.000 | 0.001 | |
getEdgeAttributeNames | 0.000 | 0.000 | 0.001 | |
getEdgeCount | 0.001 | 0.000 | 0.001 | |
getFirstNeighbors | 0.000 | 0.000 | 0.001 | |
getGraph | 0.001 | 0.000 | 0.001 | |
getGraphFromCyWindow | 0.001 | 0.000 | 0.001 | |
getLayoutNameMapping | 0.001 | 0.000 | 0.002 | |
getLayoutNames | 0.000 | 0.000 | 0.001 | |
getLayoutPropertyNames | 0.001 | 0.000 | 0.001 | |
getLayoutPropertyType | 0.001 | 0.000 | 0.002 | |
getLayoutPropertyValue | 0.002 | 0.001 | 0.002 | |
getLineStyles | 0.001 | 0.000 | 0.001 | |
getNodeAttribute | 0.000 | 0.000 | 0.001 | |
getNodeAttributeNames | 0.001 | 0.000 | 0.002 | |
getNodeCount | 0.001 | 0.000 | 0.001 | |
getNodePosition | 0.001 | 0.000 | 0.001 | |
getNodeShapes | 0.001 | 0.000 | 0.001 | |
getNodeSize | 0.001 | 0.000 | 0.002 | |
getSelectedEdgeCount | 0.001 | 0.001 | 0.002 | |
getSelectedEdges | 0.000 | 0.000 | 0.001 | |
getSelectedNodeCount | 0.001 | 0.000 | 0.001 | |
getSelectedNodes | 0.001 | 0.000 | 0.001 | |
getViewCoordinates | 0.000 | 0.000 | 0.001 | |
getVisualStyleNames | 0.000 | 0.000 | 0.001 | |
getWindowCount | 0.001 | 0.000 | 0.001 | |
getWindowID | 0.000 | 0.000 | 0.001 | |
getWindowList | 0.000 | 0.000 | 0.001 | |
getZoom | 0.001 | 0.000 | 0.001 | |
hideAllPanels | 0.001 | 0.000 | 0.001 | |
hideNodes | 0.000 | 0.000 | 0.001 | |
hidePanel | 0.001 | 0.001 | 0.001 | |
hideSelectedEdges | 0.001 | 0.000 | 0.001 | |
hideSelectedNodes | 0.001 | 0.000 | 0.001 | |
initEdgeAttribute | 0 | 0 | 0 | |
initNodeAttribute | 0.001 | 0.000 | 0.001 | |
invertEdgeSelection | 0.000 | 0.000 | 0.001 | |
invertNodeSelection | 0.001 | 0.000 | 0.001 | |
layoutNetwork | 0.001 | 0.000 | 0.001 | |
lockNodeDimensions | 0.001 | 0.001 | 0.001 | |
makeRandomGraph | 0.001 | 0.000 | 0.000 | |
makeSimpleGraph | 0.001 | 0.000 | 0.002 | |
noa | 0.000 | 0.000 | 0.001 | |
noa.names | 0.000 | 0.000 | 0.001 | |
ping | 0 | 0 | 0 | |
pluginVersion | 0.001 | 0.000 | 0.001 | |
predictTimeToDisplayGraph | 0.001 | 0.000 | 0.002 | |
raiseWindow | 0.001 | 0.000 | 0.001 | |
redraw | 0.001 | 0.000 | 0.001 | |
restoreLayout | 0.001 | 0.000 | 0.001 | |
saveImage | 0.001 | 0.000 | 0.001 | |
saveLayout | 0.001 | 0.000 | 0.001 | |
saveNetwork | 0.001 | 0.001 | 0.000 | |
selectEdges | 0 | 0 | 0 | |
selectFirstNeighborsOfSelectedNodes | 0.001 | 0.000 | 0.001 | |
selectNodes | 0.000 | 0.001 | 0.002 | |
sendEdges | 0.001 | 0.000 | 0.001 | |
sendNodes | 0.001 | 0.000 | 0.001 | |
setCenter | 0.001 | 0.000 | 0.001 | |
setDefaultBackgroundColor | 0.001 | 0.000 | 0.001 | |
setDefaultEdgeColor | 0.001 | 0.000 | 0.001 | |
setDefaultEdgeFontSize | 0.001 | 0.000 | 0.001 | |
setDefaultEdgeLineWidth | 0.001 | 0.000 | 0.001 | |
setDefaultEdgeReverseSelectionColor | 0.000 | 0.000 | 0.001 | |
setDefaultEdgeSelectionColor | 0.001 | 0.000 | 0.001 | |
setDefaultEdgeSourceArrowColor | 0.001 | 0.001 | 0.001 | |
setDefaultEdgeTargetArrowColor | 0.001 | 0.000 | 0.001 | |
setDefaultNodeBorderColor | 0.001 | 0.000 | 0.001 | |
setDefaultNodeBorderWidth | 0.000 | 0.000 | 0.001 | |
setDefaultNodeColor | 0.001 | 0.000 | 0.001 | |
setDefaultNodeFontSize | 0.001 | 0.000 | 0.001 | |
setDefaultNodeLabelColor | 0.001 | 0.000 | 0.002 | |
setDefaultNodeReverseSelectionColor | 0.001 | 0.000 | 0.001 | |
setDefaultNodeSelectionColor | 0.001 | 0.000 | 0.001 | |
setDefaultNodeShape | 0.001 | 0.001 | 0.001 | |
setDefaultNodeSize | 0.001 | 0.000 | 0.001 | |
setEdgeAttributes | 0.001 | 0.000 | 0.001 | |
setEdgeAttributesDirect | 0.001 | 0.000 | 0.001 | |
setEdgeColorDirect | 0.001 | 0.000 | 0.001 | |
setEdgeColorRule | 0.001 | 0.001 | 0.001 | |
setEdgeFontSizeDirect | 0.001 | 0.000 | 0.001 | |
setEdgeLabelColorDirect | 0.001 | 0.000 | 0.001 | |
setEdgeLabelDirect | 0.001 | 0.000 | 0.001 | |
setEdgeLabelOpacityDirect | 0.001 | 0.000 | 0.001 | |
setEdgeLabelRule | 0.001 | 0.000 | 0.001 | |
setEdgeLineStyleDirect | 0.002 | 0.000 | 0.002 | |
setEdgeLineStyleRule | 0.001 | 0.000 | 0.001 | |
setEdgeLineWidthDirect | 0.001 | 0.001 | 0.001 | |
setEdgeLineWidthRule | 0.001 | 0.000 | 0.002 | |
setEdgeOpacityDirect | 0.001 | 0.001 | 0.001 | |
setEdgeOpacityRule | 0.001 | 0.000 | 0.002 | |
setEdgeSourceArrowColorDirect | 0.001 | 0.001 | 0.002 | |
setEdgeSourceArrowColorRule | 0.002 | 0.000 | 0.002 | |
setEdgeSourceArrowOpacityDirect | 0.001 | 0.000 | 0.002 | |
setEdgeSourceArrowRule | 0.001 | 0.001 | 0.002 | |
setEdgeSourceArrowShapeDirect | 0.001 | 0.000 | 0.002 | |
setEdgeTargetArrowColorDirect | 0.002 | 0.001 | 0.002 | |
setEdgeTargetArrowColorRule | 0.001 | 0.000 | 0.002 | |
setEdgeTargetArrowOpacityDirect | 0.001 | 0.001 | 0.001 | |
setEdgeTargetArrowRule | 0.002 | 0.000 | 0.001 | |
setEdgeTargetArrowShapeDirect | 0.001 | 0.000 | 0.001 | |
setEdgeTooltipDirect | 0.002 | 0.000 | 0.001 | |
setEdgeTooltipRule | 0.001 | 0.000 | 0.001 | |
setGraph | 0.001 | 0.000 | 0.001 | |
setLayoutProperties | 0.002 | 0.000 | 0.003 | |
setNodeAttributes | 0.001 | 0.001 | 0.001 | |
setNodeAttributesDirect | 0.001 | 0.000 | 0.001 | |
setNodeBorderColorDirect | 0.001 | 0.000 | 0.001 | |
setNodeBorderColorRule | 0.001 | 0.000 | 0.002 | |
setNodeBorderOpacityDirect | 0.000 | 0.001 | 0.001 | |
setNodeBorderWidthDirect | 0.001 | 0.000 | 0.001 | |
setNodeBorderWidthRule | 0.001 | 0.000 | 0.001 | |
setNodeColorDirect | 0.001 | 0.000 | 0.001 | |
setNodeColorRule | 0.001 | 0.001 | 0.001 | |
setNodeFillOpacityDirect | 0.000 | 0.000 | 0.001 | |
setNodeFontSizeDirect | 0.001 | 0.000 | 0.001 | |
setNodeHeightDirect | 0.001 | 0.000 | 0.002 | |
setNodeImageDirect | 0.001 | 0.000 | 0.001 | |
setNodeLabelColorDirect | 0.001 | 0.001 | 0.002 | |
setNodeLabelDirect | 0.001 | 0.000 | 0.001 | |
setNodeLabelOpacityDirect | 0.001 | 0.000 | 0.002 | |
setNodeLabelRule | 0.001 | 0.000 | 0.001 | |
setNodeOpacityDirect | 0.001 | 0.000 | 0.001 | |
setNodeOpacityRule | 0.001 | 0.001 | 0.002 | |
setNodePosition | 0.001 | 0.000 | 0.001 | |
setNodeShapeDirect | 0.001 | 0.000 | 0.002 | |
setNodeShapeRule | 0.001 | 0.001 | 0.001 | |
setNodeSizeDirect | 0.001 | 0.000 | 0.001 | |
setNodeSizeRule | 0.002 | 0.001 | 0.002 | |
setNodeTooltipRule | 0.001 | 0.000 | 0.001 | |
setNodeWidthDirect | 0.001 | 0.000 | 0.001 | |
setTooltipDismissDelay | 0.001 | 0.001 | 0.002 | |
setTooltipInitialDelay | 0.001 | 0.000 | 0.001 | |
setVisualStyle | 0.001 | 0.000 | 0.001 | |
setWindowSize | 0.001 | 0.000 | 0.001 | |
setZoom | 0.001 | 0.000 | 0.002 | |
showGraphicsDetails | 0.001 | 0.001 | 0.001 | |
unhideAll | 0.001 | 0.000 | 0.002 | |