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This page was generated on 2021-10-15 15:06:26 -0400 (Fri, 15 Oct 2021).
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To the developers/maintainers of the transomics2cytoscape package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/transomics2cytoscape.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1950/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| transomics2cytoscape 1.2.2 (landing page) Kozo Nishida
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: transomics2cytoscape |
| Version: 1.2.2 |
| Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:transomics2cytoscape.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings transomics2cytoscape_1.2.2.tar.gz |
| StartedAt: 2021-10-15 06:51:59 -0400 (Fri, 15 Oct 2021) |
| EndedAt: 2021-10-15 06:52:50 -0400 (Fri, 15 Oct 2021) |
| EllapsedTime: 51.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: transomics2cytoscape.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:transomics2cytoscape.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings transomics2cytoscape_1.2.2.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/transomics2cytoscape.Rcheck' * using R version 4.1.1 (2021-08-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'transomics2cytoscape/DESCRIPTION' ... OK * this is package 'transomics2cytoscape' version '1.2.2' * package encoding: UTF-8 * 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 'transomics2cytoscape' 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 ... NOTE createEdge2Edge: no visible binding for global variable 'LAYER_INDEX' createNode2Edge: no visible binding for global variable 'LAYER_INDEX' createNode2Node: no visible binding for global variable 'LAYER_INDEX' Undefined global functions or variables: LAYER_INDEX * 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 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 NOTE See 'C:/Users/biocbuild/bbs-3.13-bioc/meat/transomics2cytoscape.Rcheck/00check.log' for details.
transomics2cytoscape.Rcheck/00install.out
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### Running command:
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### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/transomics2cytoscape_1.2.2.tar.gz && rm -rf transomics2cytoscape.buildbin-libdir && mkdir transomics2cytoscape.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=transomics2cytoscape.buildbin-libdir transomics2cytoscape_1.2.2.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL transomics2cytoscape_1.2.2.zip && rm transomics2cytoscape_1.2.2.tar.gz transomics2cytoscape_1.2.2.zip
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install for i386
* installing *source* package 'transomics2cytoscape' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'transomics2cytoscape'
finding HTML links ... done
create3Dnetwork html
createTransomicEdges html
ec2reaction html
installCyApps html
*** copying figures
** 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 'transomics2cytoscape' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'transomics2cytoscape' as transomics2cytoscape_1.2.2.zip
* DONE (transomics2cytoscape)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'transomics2cytoscape' successfully unpacked and MD5 sums checked
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transomics2cytoscape.Rcheck/tests_i386/runTests.Rout
R version 4.1.1 (2021-08-10) -- "Kick Things"
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.
> # tests are disabled in the Bioconductor build system
> # because it does not support Cytoscape installation
> # To test transomics2cytoscape in your local environment,
> # copy the data under inst/unitTests here, run Cytoscape,
> # and execute devtools::test().
>
> #require(transomics2cytoscape) || stop("unable to load transomics2cytoscape")
> #BiocGenerics:::testPackage('transomics2cytoscape')
>
> proc.time()
user system elapsed
0.14 0.04 0.18
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transomics2cytoscape.Rcheck/tests_x64/runTests.Rout
R version 4.1.1 (2021-08-10) -- "Kick Things"
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.
> # tests are disabled in the Bioconductor build system
> # because it does not support Cytoscape installation
> # To test transomics2cytoscape in your local environment,
> # copy the data under inst/unitTests here, run Cytoscape,
> # and execute devtools::test().
>
> #require(transomics2cytoscape) || stop("unable to load transomics2cytoscape")
> #BiocGenerics:::testPackage('transomics2cytoscape')
>
> proc.time()
user system elapsed
0.28 0.03 0.29
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transomics2cytoscape.Rcheck/examples_i386/transomics2cytoscape-Ex.timings
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transomics2cytoscape.Rcheck/examples_x64/transomics2cytoscape-Ex.timings
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