Stefan J. Haunsberger
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/miRNAmeConverter |
| Branch: RELEASE_3_11 |
| Last Commit: e96d971 |
| Last Changed Date: 2020-04-27 14:55:19 -0400 (Mon, 27 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:57:08 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE miRNAmeConverter PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1095/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| miRNAmeConverter 1.16.0 Stefan J. Haunsberger
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | |
| Package: miRNAmeConverter |
| Version: 1.16.0 |
| Command: C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:miRNAmeConverter.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings miRNAmeConverter_1.16.0.tar.gz |
| StartedAt: 2020-10-17 06:07:03 -0400 (Sat, 17 Oct 2020) |
| EndedAt: 2020-10-17 06:10:34 -0400 (Sat, 17 Oct 2020) |
| EllapsedTime: 210.9 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: miRNAmeConverter.Rcheck |
| Warnings: 1 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:miRNAmeConverter.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings miRNAmeConverter_1.16.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/miRNAmeConverter.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 'miRNAmeConverter/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'miRNAmeConverter' 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 'miRNAmeConverter' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ...It is recommended to use 'given' instead of 'middle'.
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
MiRNANameConverter,ANY: no visible global function definition for 'new'
Undefined global functions or variables:
new
Consider adding
importFrom("methods", "new")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
'getMirnasForMirbaseVersion'
Undocumented S4 methods:
generic 'getMirnasForMirbaseVersion' and siglist 'MiRNANameConverter'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* 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 examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
MiRNANameConverter-ANY-method 0.14 0.27 47.92
** 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 PDF version of manual ... OK
* DONE
Status: 1 WARNING, 1 NOTE
See
'C:/Users/biocbuild/bbs-3.11-bioc/meat/miRNAmeConverter.Rcheck/00check.log'
for details.
miRNAmeConverter.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/miRNAmeConverter_1.16.0.tar.gz && rm -rf miRNAmeConverter.buildbin-libdir && mkdir miRNAmeConverter.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=miRNAmeConverter.buildbin-libdir miRNAmeConverter_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL miRNAmeConverter_1.16.0.zip && rm miRNAmeConverter_1.16.0.tar.gz miRNAmeConverter_1.16.0.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 314k 100 314k 0 0 5221k 0 --:--:-- --:--:-- --:--:-- 5935k
install for i386
* installing *source* package 'miRNAmeConverter' ...
** using staged installation
It is recommended to use 'given' instead of 'middle'.
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function from function 'MiRNANameConverter' in package 'miRNAmeConverter'
** help
*** installing help indices
converting help for package 'miRNAmeConverter'
finding HTML links ... done
MiRNANameConverter-ANY-method html
MiRNANameConverter html
assessMiRNASwappingMIMAT html
assessVersion html
checkMiRNAName html
currentVersion-set html
currentVersion html
example.miRNAs html
miRNAmeConverter html
nOrganisms-set html
nOrganisms html
nTotalEntries-set html
nTotalEntries html
saveResults html
show-MiRNANameConverter-method html
translateMiRNAName html
validOrganisms-set html
validOrganisms html
validVersions-set html
validVersions html
** building package indices
** 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 'miRNAmeConverter' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'miRNAmeConverter' as miRNAmeConverter_1.16.0.zip
* DONE (miRNAmeConverter)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'miRNAmeConverter' successfully unpacked and MD5 sums checked
|
miRNAmeConverter.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(miRNAmeConverter)
Loading required package: miRBaseVersions.db
>
> test_check("miRNAmeConverter")
miRNA 'hsa-let-7a-3p' is the same as 'hsa-let-7a*'.
->hsa-let-7a-3p is the most recent one and will be used. The other ones will be neglected.
== testthat results ===========================================================
[ OK: 11 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
8.39 0.28 10.42
|
miRNAmeConverter.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(miRNAmeConverter)
Loading required package: miRBaseVersions.db
>
> test_check("miRNAmeConverter")
miRNA 'hsa-let-7a-3p' is the same as 'hsa-let-7a*'.
->hsa-let-7a-3p is the most recent one and will be used. The other ones will be neglected.
== testthat results ===========================================================
[ OK: 11 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
> proc.time()
user system elapsed
7.92 0.31 8.23
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miRNAmeConverter.Rcheck/examples_i386/miRNAmeConverter-Ex.timings
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miRNAmeConverter.Rcheck/examples_x64/miRNAmeConverter-Ex.timings
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