Hector Corrada Bravo
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/epivizrStandalone |
| Branch: RELEASE_3_11 |
| Last Commit: dbb8d04 |
| Last Changed Date: 2020-04-27 14:57:40 -0400 (Mon, 27 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:56:32 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE epivizrStandalone PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 560/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| epivizrStandalone 1.16.0 Hector Corrada Bravo
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |
| Package: epivizrStandalone |
| Version: 1.16.0 |
| Command: C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:epivizrStandalone.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings epivizrStandalone_1.16.0.tar.gz |
| StartedAt: 2020-10-17 03:48:49 -0400 (Sat, 17 Oct 2020) |
| EndedAt: 2020-10-17 03:59:30 -0400 (Sat, 17 Oct 2020) |
| EllapsedTime: 641.3 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: epivizrStandalone.Rcheck |
| Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:epivizrStandalone.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings epivizrStandalone_1.16.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/epivizrStandalone.Rcheck' * using R version 4.0.3 (2020-10-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'epivizrStandalone/DESCRIPTION' ... OK * this is package 'epivizrStandalone' version '1.16.0' * 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 'epivizrStandalone' can be installed ... WARNING Found the following significant warnings: Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpGCZuLG/R.INSTALL2b2472c66bad/epivizrStandalone/man/startStandalone.Rd:13: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpGCZuLG/R.INSTALL2b2472c66bad/epivizrStandalone/man/startStandalone.Rd:37: file link 'EpivizApp' in package 'epivizr' does not exist and so has been treated as a topic Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpGCZuLG/R.INSTALL2b2472c66bad/epivizrStandalone/man/startStandaloneApp.Rd:14: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpGCZuLG/R.INSTALL2b2472c66bad/epivizrStandalone/man/startStandaloneApp.Rd:35: file link 'EpivizApp' in package 'epivizr' does not exist and so has been treated as a topic Warning: replacing previous import 'S4Vectors::merge' by 'git2r::merge' when loading 'epivizrStandalone' Warning: replacing previous import 'S4Vectors::head' by 'git2r::head' when loading 'epivizrStandalone' Warning: replacing previous import 'S4Vectors::as.data.frame' by 'git2r::as.data.frame' when loading 'epivizrStandalone' See 'C:/Users/biocbuild/bbs-3.11-bioc/meat/epivizrStandalone.Rcheck/00install.out' for details. * 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 ... 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 'testthat.R' OK ** running tests for arch 'x64' ... Running 'testthat.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-3.11-bioc/meat/epivizrStandalone.Rcheck/00check.log' for details.
epivizrStandalone.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/epivizrStandalone_1.16.0.tar.gz && rm -rf epivizrStandalone.buildbin-libdir && mkdir epivizrStandalone.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=epivizrStandalone.buildbin-libdir epivizrStandalone_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL epivizrStandalone_1.16.0.zip && rm epivizrStandalone_1.16.0.tar.gz epivizrStandalone_1.16.0.zip
###
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install for i386
* installing *source* package 'epivizrStandalone' ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
Warning: replacing previous import 'S4Vectors::merge' by 'git2r::merge' when loading 'epivizrStandalone'
Warning: replacing previous import 'S4Vectors::head' by 'git2r::head' when loading 'epivizrStandalone'
Warning: replacing previous import 'S4Vectors::as.data.frame' by 'git2r::as.data.frame' when loading 'epivizrStandalone'
** help
*** installing help indices
converting help for package 'epivizrStandalone'
finding HTML links ... done
setStandalone html
startStandalone html
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpGCZuLG/R.INSTALL2b2472c66bad/epivizrStandalone/man/startStandalone.Rd:13: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpGCZuLG/R.INSTALL2b2472c66bad/epivizrStandalone/man/startStandalone.Rd:37: file link 'EpivizApp' in package 'epivizr' does not exist and so has been treated as a topic
startStandaloneApp html
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpGCZuLG/R.INSTALL2b2472c66bad/epivizrStandalone/man/startStandaloneApp.Rd:14: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpGCZuLG/R.INSTALL2b2472c66bad/epivizrStandalone/man/startStandaloneApp.Rd:35: file link 'EpivizApp' in package 'epivizr' does not exist and so has been treated as a topic
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import 'S4Vectors::merge' by 'git2r::merge' when loading 'epivizrStandalone'
Warning: replacing previous import 'S4Vectors::head' by 'git2r::head' when loading 'epivizrStandalone'
Warning: replacing previous import 'S4Vectors::as.data.frame' by 'git2r::as.data.frame' when loading 'epivizrStandalone'
** testing if installed package can be loaded from final location
Warning: replacing previous import 'S4Vectors::merge' by 'git2r::merge' when loading 'epivizrStandalone'
Warning: replacing previous import 'S4Vectors::head' by 'git2r::head' when loading 'epivizrStandalone'
Warning: replacing previous import 'S4Vectors::as.data.frame' by 'git2r::as.data.frame' when loading 'epivizrStandalone'
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'epivizrStandalone' ...
** testing if installed package can be loaded
Warning: replacing previous import 'S4Vectors::merge' by 'git2r::merge' when loading 'epivizrStandalone'
Warning: replacing previous import 'S4Vectors::head' by 'git2r::head' when loading 'epivizrStandalone'
Warning: replacing previous import 'S4Vectors::as.data.frame' by 'git2r::as.data.frame' when loading 'epivizrStandalone'
* MD5 sums
packaged installation of 'epivizrStandalone' as epivizrStandalone_1.16.0.zip
* DONE (epivizrStandalone)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'epivizrStandalone' successfully unpacked and MD5 sums checked
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epivizrStandalone.Rcheck/tests_i386/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
Copyright (C) 2020 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.
> library(testthat)
> library(epivizrStandalone)
Loading required package: epivizr
Warning messages:
1: replacing previous import 'S4Vectors::merge' by 'git2r::merge' when loading 'epivizrStandalone'
2: replacing previous import 'S4Vectors::head' by 'git2r::head' when loading 'epivizrStandalone'
3: replacing previous import 'S4Vectors::as.data.frame' by 'git2r::as.data.frame' when loading 'epivizrStandalone'
>
> test_check("epivizrStandalone")
== testthat results ===========================================================
[ OK: 5 | SKIPPED: 3 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
11.65 1.12 15.98
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epivizrStandalone.Rcheck/tests_x64/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
Copyright (C) 2020 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.
> library(testthat)
> library(epivizrStandalone)
Loading required package: epivizr
Warning messages:
1: replacing previous import 'S4Vectors::merge' by 'git2r::merge' when loading 'epivizrStandalone'
2: replacing previous import 'S4Vectors::head' by 'git2r::head' when loading 'epivizrStandalone'
3: replacing previous import 'S4Vectors::as.data.frame' by 'git2r::as.data.frame' when loading 'epivizrStandalone'
>
> test_check("epivizrStandalone")
== testthat results ===========================================================
[ OK: 5 | SKIPPED: 3 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
12.79 0.46 17.53
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epivizrStandalone.Rcheck/examples_i386/epivizrStandalone-Ex.timings
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epivizrStandalone.Rcheck/examples_x64/epivizrStandalone-Ex.timings
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