Back to Build/check report for BioC 3.17 |
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This page was generated on 2023-01-02 09:00:39 -0500 (Mon, 02 Jan 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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palomino5 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences" | 4165 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
To the developers/maintainers of the miRNAmeConverter package: Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1203/2158 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
miRNAmeConverter 1.27.0 (landing page) Stefan J. Haunsberger
| palomino5 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | ||||||||
Package: miRNAmeConverter |
Version: 1.27.0 |
Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:miRNAmeConverter.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings miRNAmeConverter_1.27.0.tar.gz |
StartedAt: 2022-12-29 01:26:23 -0500 (Thu, 29 Dec 2022) |
EndedAt: 2022-12-29 01:27:55 -0500 (Thu, 29 Dec 2022) |
EllapsedTime: 92.0 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: miRNAmeConverter.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:miRNAmeConverter.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings miRNAmeConverter_1.27.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.17-bioc-rtools43/meat/miRNAmeConverter.Rcheck' * using R Under development (unstable) (2022-12-25 r83502 ucrt) * using platform: x86_64-w64-mingw32 (64-bit) * R was compiled by gcc.exe (GCC) 10.4.0 GNU Fortran (GCC) 10.4.0 * running under: Windows Server x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'miRNAmeConverter/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'miRNAmeConverter' version '1.27.0' * 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 ...Warning in person1(given = given[[i]], family = family[[i]], middle = middle[[i]], : 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 * 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 LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'testthat.R' OK * checking PDF version of manual ... OK * DONE Status: 1 WARNING, 1 NOTE See 'F:/biocbuild/bbs-3.17-bioc-rtools43/meat/miRNAmeConverter.Rcheck/00check.log' for details.
miRNAmeConverter.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL miRNAmeConverter ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.17-bioc/R/library' * installing *source* package 'miRNAmeConverter' ... ** using staged installation Warning in person1(given = given[[i]], family = family[[i]], middle = middle[[i]], : 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 ** 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 * DONE (miRNAmeConverter)
miRNAmeConverter.Rcheck/tests/testthat.Rout
R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences" Copyright (C) 2022 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. [ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ] > > proc.time() user system elapsed 6.35 0.39 6.71
miRNAmeConverter.Rcheck/miRNAmeConverter-Ex.timings
name | user | system | elapsed | |
MiRNANameConverter-ANY-method | 0.10 | 0.12 | 0.63 | |
assessVersion | 0.2 | 0.0 | 0.2 | |
checkMiRNAName | 0.13 | 0.00 | 0.12 | |
currentVersion | 0.06 | 0.00 | 0.07 | |
miRNAmeConverter | 0.47 | 0.00 | 0.47 | |
nOrganisms | 0.06 | 0.00 | 0.06 | |
nTotalEntries | 0.06 | 0.00 | 0.06 | |
saveResults | 0.63 | 0.00 | 0.63 | |
translateMiRNAName | 0.61 | 0.00 | 0.60 | |
validOrganisms | 0.09 | 0.00 | 0.10 | |
validVersions | 0.09 | 0.00 | 0.09 | |