Back to Multiple platform build/check report for BioC 3.10 |
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This page was generated on 2020-04-15 12:07:02 -0400 (Wed, 15 Apr 2020).
Package 1420/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
RGalaxy 1.30.0 Bioconductor Package Maintainer
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ OK ] | |||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: RGalaxy |
Version: 1.30.0 |
Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:RGalaxy.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings RGalaxy_1.30.0.tar.gz |
StartedAt: 2020-04-15 01:21:33 -0400 (Wed, 15 Apr 2020) |
EndedAt: 2020-04-15 01:22:25 -0400 (Wed, 15 Apr 2020) |
EllapsedTime: 51.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: RGalaxy.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:RGalaxy.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings RGalaxy_1.30.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/RGalaxy.Rcheck’ * using R version 3.6.3 (2020-02-29) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘RGalaxy/DESCRIPTION’ ... OK * this is package ‘RGalaxy’ version ‘1.30.0’ * checking package namespace information ... OK * checking package dependencies ... NOTE Package which this enhances but not available for checking: ‘RSclient’ * 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 for sufficient/correct file permissions ... OK * checking whether package ‘RGalaxy’ 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 * 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 ... NOTE 'library' or 'require' call to ‘RSclient’ in package code. Please use :: or requireNamespace() instead. See section 'Suggested packages' in the 'Writing R Extensions' manual. Package in Depends field not imported from: ‘optparse’ These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. Unexported objects imported by ':::' calls: ‘tools:::.Rd_get_argument_table’ ‘tools:::.Rd_get_metadata’ ‘tools:::fetchRdDB’ See the note in ?`:::` about the use of this operator. * 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 files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘runTests.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: 2 NOTEs See ‘/home/biocbuild/bbs-3.10-bioc/meat/RGalaxy.Rcheck/00check.log’ for details.
RGalaxy.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL RGalaxy ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’ * installing *source* package ‘RGalaxy’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** 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 * DONE (RGalaxy)
RGalaxy.Rcheck/tests/runTests.Rout
R version 3.6.3 (2020-02-29) -- "Holding the Windsock" Copyright (C) 2020 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (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. > BiocGenerics:::testPackage("RGalaxy") Attaching package: 'tools' The following object is masked from 'package:XML': toHTML null device 1 Note: Did not find section 'Details' in man page. RUNIT TEST PROTOCOL -- Wed Apr 15 01:22:21 2020 *********************************************** Number of test functions: 9 Number of errors: 0 Number of failures: 0 1 Test Suite : RGalaxy RUnit Tests - 9 test functions, 0 errors, 0 failures Number of test functions: 9 Number of errors: 0 Number of failures: 0 Warning messages: 1: Not enough information to create a functional test. 2: Not enough information to create a functional test. 3: Not enough information to create a functional test. 4: Not enough information to create a functional test. 5: Not enough information to create a functional test. 6: Not enough information to create a functional test. > > proc.time() user system elapsed 6.876 0.396 7.523
RGalaxy.Rcheck/RGalaxy-Ex.timings
name | user | system | elapsed | |
GalaxyClasses | 0.044 | 0.004 | 0.047 | |
GalaxyConfig-class | 0.000 | 0.000 | 0.002 | |
GalaxyInputFile-class | 0.004 | 0.000 | 0.002 | |
GalaxyOutput-class | 0.004 | 0.000 | 0.004 | |
RserveConnection-class | 0.000 | 0.000 | 0.001 | |
addTwoNumbers | 0.000 | 0.000 | 0.001 | |
addTwoNumbersWithTest | 0.016 | 0.000 | 0.026 | |
anotherTestFunction | 0.012 | 0.000 | 0.014 | |
functionToGalaxify | 0.076 | 0.008 | 0.084 | |
galaxy | 0.004 | 0.000 | 0.002 | |
getFriendlyName | 0 | 0 | 0 | |
probeLookup | 2.876 | 0.068 | 3.153 | |
utilities | 0.000 | 0.000 | 0.002 | |