Christian H. Holland
| Snapshot Date: 2021-01-18 09:00:15 -0500 (Mon, 18 Jan 2021) |
| URL: https://git.bioconductor.org/packages/dorothea |
| Branch: master |
| Last Commit: 6e2b837 |
| Last Changed Date: 2020-10-27 10:31:26 -0500 (Tue, 27 Oct 2020) |
| Back to Multiple platform build/check report for BioC 3.13 experimental data |
|
This page was generated on 2021-01-18 15:58:47 -0500 (Mon, 18 Jan 2021).
| TO THE DEVELOPERS/MAINTAINERS OF THE dorothea PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 99/385 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||
| dorothea 1.3.0 Christian H. Holland
| malbec2 | Linux (Ubuntu 20.04.1 LTS) / x86_64 | OK | OK | OK | | |||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | [ WARNINGS ] |
| Package: dorothea |
| Version: 1.3.0 |
| Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:dorothea.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings dorothea_1.3.0.tar.gz |
| StartedAt: 2021-01-18 11:19:41 -0500 (Mon, 18 Jan 2021) |
| EndedAt: 2021-01-18 11:21:19 -0500 (Mon, 18 Jan 2021) |
| EllapsedTime: 97.3 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: dorothea.Rcheck |
| Warnings: 1 |
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### Running command:
###
### D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:dorothea.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings dorothea_1.3.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/dorothea.Rcheck'
* using R Under development (unstable) (2020-12-30 r79736)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'dorothea/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'dorothea' version '1.3.0'
* 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 ... NOTE
Found the following hidden files and directories:
.travis.yml
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking whether package 'dorothea' can be installed ... WARNING
Found the following significant warnings:
Rd warning: cannot open file 'D:/biocbuild/bbs-3.13-data-experiment/meat/dorothea.buildbin-libdir/00LOCK-dorothea/00new/dorothea/help/%>%.html': Invalid argument
See 'D:/biocbuild/bbs-3.13-data-experiment/meat/dorothea.Rcheck/00install.out' for details.
* checking installed package size ... NOTE
installed size is 35.2Mb
sub-directories of 1Mb or more:
data 7.9Mb
extdata 17.2Mb
help 1.3Mb
testdata 8.5Mb
* 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 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
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
run_viper 6.38 0.2 6.58
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
run_viper 6.58 0.35 6.92
* 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, 2 NOTEs
See
'D:/biocbuild/bbs-3.13-data-experiment/meat/dorothea.Rcheck/00check.log'
for details.
dorothea.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.13/data-experiment/src/contrib/dorothea_1.3.0.tar.gz && rm -rf dorothea.buildbin-libdir && mkdir dorothea.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=dorothea.buildbin-libdir dorothea_1.3.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL dorothea_1.3.0.zip && rm dorothea_1.3.0.tar.gz dorothea_1.3.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 29.8M 100 29.8M 0 0 37.1M 0 --:--:-- --:--:-- --:--:-- 37.1M
install for i386
* installing *source* package 'dorothea' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'dorothea'
finding HTML links ... done
df2regulon html
REDIRECT:topic df2regulon -> df2regulon.html [ SUCCESS ]
dorothea-package html
REDIRECT:topic dorothea -> dorothea-package.html [ SUCCESS ]
REDIRECT:topic dorothea-package -> dorothea-package.html [ SUCCESS ]
dorothea_hs html
REDIRECT:topic dorothea_hs -> dorothea_hs.html [ SUCCESS ]
dorothea_mm html
REDIRECT:topic dorothea_mm -> dorothea_mm.html [ SUCCESS ]
entire_database html
REDIRECT:topic entire_database -> entire_database.html [ SUCCESS ]
pipe html
REDIRECT:topic %>% -> pipe.html [ FAIL ]
REDIRECT:file pipe.html -> pipe.html [ SUCCESS ]
Rd warning: cannot open file 'D:/biocbuild/bbs-3.13-data-experiment/meat/dorothea.buildbin-libdir/00LOCK-dorothea/00new/dorothea/help/%>%.html': Invalid argument
run_viper html
REDIRECT:topic run_viper -> run_viper.html [ SUCCESS ]
*** 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 'dorothea' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'dorothea' as dorothea_1.3.0.zip
* DONE (dorothea)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'dorothea' successfully unpacked and MD5 sums checked
|
dorothea.Rcheck/tests_i386/testthat.Rout
R Under development (unstable) (2020-12-30 r79736) -- "Unsuffered Consequences"
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(dorothea)
>
> test_check("dorothea")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 16 ]
>
> proc.time()
user system elapsed
15.03 1.12 16.14
|
dorothea.Rcheck/tests_x64/testthat.Rout
R Under development (unstable) (2020-12-30 r79736) -- "Unsuffered Consequences"
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(dorothea)
>
> test_check("dorothea")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 16 ]
>
> proc.time()
user system elapsed
15.70 0.84 16.53
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dorothea.Rcheck/examples_i386/dorothea-Ex.timings
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dorothea.Rcheck/examples_x64/dorothea-Ex.timings
|