Richard Cotton
| Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019) |
| URL: https://git.bioconductor.org/packages/readat |
| Branch: RELEASE_3_8 |
| Last Commit: a5a144d |
| Last Changed Date: 2018-10-30 11:42:02 -0400 (Tue, 30 Oct 2018) |
| Back to Multiple platform build/check report for BioC 3.8 |
|
This page was generated on 2019-04-13 11:27:05 -0400 (Sat, 13 Apr 2019).
| Package 1276/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| readat 1.8.0 Richard Cotton
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: readat |
| Version: 1.8.0 |
| Command: C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:readat.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings readat_1.8.0.tar.gz |
| StartedAt: 2019-04-13 04:55:51 -0400 (Sat, 13 Apr 2019) |
| EndedAt: 2019-04-13 05:00:10 -0400 (Sat, 13 Apr 2019) |
| EllapsedTime: 258.4 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: readat.Rcheck |
| Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:readat.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings readat_1.8.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/readat.Rcheck' * using R version 3.5.3 (2019-03-11) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'readat/DESCRIPTION' ... OK * this is package 'readat' version '1.8.0' * checking package namespace information ... OK * checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib: cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES' 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 'readat' can be installed ... WARNING Found the following significant warnings: Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmoB9el/R.INSTALL1d5460913a56/readat/man/chromosomalPositions.Rd:7: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmoB9el/R.INSTALL1d5460913a56/readat/man/chromosomalPositions.Rd:8: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic See 'C:/Users/biocbuild/bbs-3.8-bioc/meat/readat.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 ... NOTE sfread: no visible binding for global variable 'header' sfread: no visible binding for global variable 'nrows' Undefined global functions or variables: header nrows * 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 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, 1 NOTE See 'C:/Users/biocbuild/bbs-3.8-bioc/meat/readat.Rcheck/00check.log' for details.
readat.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/readat_1.8.0.tar.gz && rm -rf readat.buildbin-libdir && mkdir readat.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=readat.buildbin-libdir readat_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL readat_1.8.0.zip && rm readat_1.8.0.tar.gz readat_1.8.0.zip
###
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install for i386
* installing *source* package 'readat' ...
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'readat'
finding HTML links ... done
WideSomaLogicData html
WideSomaLogicDataAttributes html
aptamers html
as.ExpressionSet html
as.SummarizedExperiment html
chromosomalPositions html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmoB9el/R.INSTALL1d5460913a56/readat/man/chromosomalPositions.Rd:7: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmoB9el/R.INSTALL1d5460913a56/readat/man/chromosomalPositions.Rd:8: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
colnamesStartWithSeqId html
convertSeqIdToAptamer html
createSampleSubmission html
ensemblIds html
extractSampleData html
getChromosomalPositions html
getEnsemblIds html
getGoMolecularFunctions html
getKeggDefinitions html
getPfam html
getSampleIdVar html
getSequencesWithLargestBetweenGroupVariation
html
getUniProtKeywords html
goMolecularFunction html
isPass html
isSomaEset html
keggDefinitions html
melt.WideSomaLogicData html
orderPlatePosition html
pfam html
readAdat html
readComments html
readControls html
readFirstChar html
readSamples html
readSlides html
readat-defunct html
sub-.WideSomaLogicData html
uniprotKeywords html
writeSampleSubmissionForm html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'readat' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'readat' as readat_1.8.0.zip
* DONE (readat)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'readat' successfully unpacked and MD5 sums checked
In R CMD INSTALL
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readat.Rcheck/tests_i386/testthat.Rout
R version 3.5.3 (2019-03-11) -- "Great Truth"
Copyright (C) 2019 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(readat)
> library(testthat)
>
> test_check("readat")
== testthat results ===========================================================
OK: 62 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
7.95 1.37 8.65
|
readat.Rcheck/tests_x64/testthat.Rout
R version 3.5.3 (2019-03-11) -- "Great Truth"
Copyright (C) 2019 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(readat)
> library(testthat)
>
> test_check("readat")
== testthat results ===========================================================
OK: 62 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
6.90 0.98 7.28
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readat.Rcheck/examples_i386/readat-Ex.timings
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readat.Rcheck/examples_x64/readat-Ex.timings
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