Solaiappan Manimaran
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/PathoStat |
| Branch: RELEASE_3_6 |
| Last Commit: 3911148 |
| Last Changed Date: 2017-12-06 23:55:55 -0400 (Wed, 06 Dec 2017) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:28:53 -0400 (Thu, 12 Apr 2018).
| Package 1005/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| PathoStat 1.4.1 Solaiappan Manimaran
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | [ OK ] | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK | |
| Package: PathoStat |
| Version: 1.4.1 |
| Command: rm -rf PathoStat.buildbin-libdir PathoStat.Rcheck && mkdir PathoStat.buildbin-libdir PathoStat.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=PathoStat.buildbin-libdir PathoStat_1.4.1.tar.gz >PathoStat.Rcheck\00install.out 2>&1 && cp PathoStat.Rcheck\00install.out PathoStat-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=PathoStat.buildbin-libdir --install="check:PathoStat-install.out" --force-multiarch --no-vignettes --timings PathoStat_1.4.1.tar.gz |
| StartedAt: 2018-04-12 02:01:24 -0400 (Thu, 12 Apr 2018) |
| EndedAt: 2018-04-12 02:09:27 -0400 (Thu, 12 Apr 2018) |
| EllapsedTime: 483.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: PathoStat.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### rm -rf PathoStat.buildbin-libdir PathoStat.Rcheck && mkdir PathoStat.buildbin-libdir PathoStat.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=PathoStat.buildbin-libdir PathoStat_1.4.1.tar.gz >PathoStat.Rcheck\00install.out 2>&1 && cp PathoStat.Rcheck\00install.out PathoStat-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=PathoStat.buildbin-libdir --install="check:PathoStat-install.out" --force-multiarch --no-vignettes --timings PathoStat_1.4.1.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/PathoStat.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'PathoStat/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'PathoStat' version '1.4.1'
* 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 'PathoStat' 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
** checking loading without being on the library search path ... 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 loading without being on the library search path ... 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
createPathoStat 1.03 0 17.64
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
createPathoStat 1.19 0 22.76
* 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: OK
PathoStat.Rcheck/00install.out
install for i386
* installing *source* package 'PathoStat' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'PathoStat'
finding HTML links ... done
PathoStat-class html
coreOTU html
coreOTUModule html
coreOTUModuleUI html
coreOTUNormalize html
coreOTUQuantile html
createPathoStat html
findRAfromCount html
findTaxonLevel html
findTaxonLevelData html
findTaxonMat html
findTaxonomy html
formatTaxTable html
getShinyInput html
getShinyInputCombat html
getShinyInputOrig html
get_core html
get_coremat html
get_coremat_lineplot html
grepTid html
loadPathoscopeReports html
loadPstat html
log2CPM html
pathostat html
plotConfRegion html
pstat_data html
readPathoscopeData html
runPathoStat html
savePstat html
setShinyInput html
setShinyInputCombat html
setShinyInputOrig html
sizeNormalize html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'PathoStat' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'PathoStat' as PathoStat_1.4.1.zip
* DONE (PathoStat)
In R CMD INSTALL
In R CMD INSTALL
|
PathoStat.Rcheck/tests_i386/testthat.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 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(PathoStat)
>
> test_check("PathoStat")
inline R code fragments
label: unnamed-chunk-1 (with options)
List of 1
$ echo: logi FALSE
inline R code fragments
label: unnamed-chunk-2 (with options)
List of 5
$ eval : symbol eval_cell_1
$ echo : logi FALSE
$ message : logi FALSE
$ fig.width : num 12
$ fig.height: num 8
"C:/PROGRA˜2/Pandoc/pandoc" +RTS -K512m -RTS pathostat_report.utf8.md --to html4 --from markdown+autolink_bare_uris+ascii_identifiers+tex_math_single_backslash+smart --output pandoc35d84c051806.html --email-obfuscation none --standalone --section-divs --table-of-contents --toc-depth 2 --template PathoStat.html --highlight-style pygments --css "C:\Users\biocbuild\bbs-3.6-bioc\R\library\rmarkdown\rmarkdown\templates\html_vignette\resources\vignette.css" --mathjax
== testthat results ===========================================================
OK: 19 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
12.57 0.53 34.01
|
PathoStat.Rcheck/tests_x64/testthat.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-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(PathoStat)
>
> test_check("PathoStat")
inline R code fragments
label: unnamed-chunk-1 (with options)
List of 1
$ echo: logi FALSE
inline R code fragments
label: unnamed-chunk-2 (with options)
List of 5
$ eval : symbol eval_cell_1
$ echo : logi FALSE
$ message : logi FALSE
$ fig.width : num 12
$ fig.height: num 8
"C:/PROGRA˜2/Pandoc/pandoc" +RTS -K512m -RTS pathostat_report.utf8.md --to html4 --from markdown+autolink_bare_uris+ascii_identifiers+tex_math_single_backslash+smart --output pandoc361046b25fbd.html --email-obfuscation none --standalone --section-divs --table-of-contents --toc-depth 2 --template PathoStat.html --highlight-style pygments --css "C:\Users\biocbuild\bbs-3.6-bioc\R\library\rmarkdown\rmarkdown\templates\html_vignette\resources\vignette.css" --mathjax
== testthat results ===========================================================
OK: 19 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
15.46 0.54 37.59
|
|
PathoStat.Rcheck/examples_i386/PathoStat-Ex.timings
|
PathoStat.Rcheck/examples_x64/PathoStat-Ex.timings
|