Paul Shannon
| Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021) |
| URL: https://git.bioconductor.org/packages/RCyjs |
| Branch: RELEASE_3_12 |
| Last Commit: bc3444a |
| Last Changed Date: 2020-10-27 11:04:38 -0400 (Tue, 27 Oct 2020) |
| Back to Multiple platform build/check report for BioC 3.12 |
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This page was generated on 2021-05-06 12:33:08 -0400 (Thu, 06 May 2021).
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To the developers/maintainers of the RCyjs package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1476/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| RCyjs 2.12.0 (landing page) Paul Shannon
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| Package: RCyjs |
| Version: 2.12.0 |
| Command: C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:RCyjs.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings RCyjs_2.12.0.tar.gz |
| StartedAt: 2021-05-06 06:02:01 -0400 (Thu, 06 May 2021) |
| EndedAt: 2021-05-06 06:03:09 -0400 (Thu, 06 May 2021) |
| EllapsedTime: 67.8 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: RCyjs.Rcheck |
| Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:RCyjs.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings RCyjs_2.12.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/RCyjs.Rcheck' * using R version 4.0.5 (2021-03-31) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'RCyjs/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'RCyjs' version '2.12.0' * 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 whether package 'RCyjs' 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 * loading checks for arch 'i386' ** 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 * loading checks for arch 'x64' ** 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 ... 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 ... WARNING Undocumented arguments in documentation object 'hideNodes,RCyjs-method' 'nodeIDs' Undocumented arguments in documentation object 'readAndStandardizeJSONNetworkFile' 'filename' Documented arguments not in \usage in documentation object 'readAndStandardizeJSONNetworkFile': 'file' Undocumented arguments in documentation object 'readAndStandardizeJSONStyleFile' 'filename' Documented arguments not in \usage in documentation object 'readAndStandardizeJSONStyleFile': 'file' Undocumented arguments in documentation object 'showNodes,RCyjs-method' 'nodeIDs' Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter 'Writing R documentation files' in the 'Writing R Extensions' manual. * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking include directives in Makefiles ... OK * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK ** running examples for arch 'x64' ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'runTests.R' OK ** running tests for arch 'x64' ... 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 See 'C:/Users/biocbuild/bbs-3.12-bioc/meat/RCyjs.Rcheck/00check.log' for details.
RCyjs.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/RCyjs_2.12.0.tar.gz && rm -rf RCyjs.buildbin-libdir && mkdir RCyjs.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=RCyjs.buildbin-libdir RCyjs_2.12.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL RCyjs_2.12.0.zip && rm RCyjs_2.12.0.tar.gz RCyjs_2.12.0.zip
###
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install for i386
* installing *source* package 'RCyjs' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for 'layout' in package 'RCyjs'
** help
*** installing help indices
converting help for package 'RCyjs'
finding HTML links ... done
RCyjs-class html
addGraph html
addGraphFromFile html
clearSelection html
createTestGaph html
dataFramesToJSON html
deleteGraph html
deleteSelectedNodes html
eda html
edaNames html
fit html
fitSelection html
getEdgeCount html
getJSON html
getLayoutStrategies html
getNodeCount html
getNodes html
getPosition html
getSelectedNodes html
getSupportedEdgeDecoratorShapes html
getSupportedNodeShapes html
getZoom html
graphNELtoJSON.string html
hAlign html
hideAllEdges html
hideEdges html
hideNodes html
hideSelectedNodes html
invertNodeSelection html
layout html
layoutSelectionInGrid html
layoutSelectionInGridInferAnchorm html
loadStyleFile html
noa html
noaNames html
readAndStandardizeJSONNetworkFile html
readAndStandardizeJSONStyleFile html
redraw html
restoreLayout html
saveJPG html
saveLayout html
savePNG html
selectFirstNeighborsOfSelectedNodes html
selectNodes html
setBackgroundColor html
setDefaultEdgeColor html
setDefaultEdgeLineColor html
setDefaultEdgeLineStyle html
setDefaultEdgeSourceArrowColor html
setDefaultEdgeSourceArrowShape html
setDefaultEdgeTargetArrowColor html
setDefaultEdgeTargetArrowShape html
setDefaultEdgeWidth html
setDefaultNodeBorderColor html
setDefaultNodeBorderWidth html
setDefaultNodeColor html
setDefaultNodeFontColor html
setDefaultNodeFontSize html
setDefaultNodeHeight html
setDefaultNodeShape html
setDefaultNodeSize html
setDefaultNodeWidth html
setDefaultStyle html
setEdgeAttributes html
setEdgeStyle html
setGraph html
setNodeAttributes html
setNodeBorderColor html
setNodeBorderWidth html
setNodeColor html
setNodeColorRule html
setNodeFontColor html
setNodeFontSize html
setNodeHeight html
setNodeLabelAlignment html
setNodeLabelRule html
setNodeShape html
setNodeSize html
setNodeSizeRule html
setNodeWidth html
setPosition html
setZoom html
sfn html
showAll html
showEdges html
showNodes html
simpleDemoGraph html
vAlign html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'RCyjs' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'RCyjs' as RCyjs_2.12.0.zip
* DONE (RCyjs)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'RCyjs' successfully unpacked and MD5 sums checked
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RCyjs.Rcheck/tests_i386/runTests.Rout
R version 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-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.
> # disabled: the bioc build system no longer supports browser use.
> # BiocGenerics:::testPackage("RCyjs")
>
> proc.time()
user system elapsed
0.17 0.07 0.21
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RCyjs.Rcheck/tests_x64/runTests.Rout
R version 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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.
> # disabled: the bioc build system no longer supports browser use.
> # BiocGenerics:::testPackage("RCyjs")
>
> proc.time()
user system elapsed
0.29 0.01 0.29
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RCyjs.Rcheck/examples_i386/RCyjs-Ex.timings
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RCyjs.Rcheck/examples_x64/RCyjs-Ex.timings
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