Back to Build/check report for BioC 3.17 experimental data |
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This page was generated on 2023-10-12 14:51:35 -0400 (Thu, 12 Oct 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4626 |
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 |
Package 49/421 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
ccTutorial 1.38.0 (landing page) Joern Toedling
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | OK | ||||||||
To the developers/maintainers of the ccTutorial package: - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: ccTutorial |
Version: 1.38.0 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:ccTutorial.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings ccTutorial_1.38.0.tar.gz |
StartedAt: 2023-10-12 11:03:52 -0400 (Thu, 12 Oct 2023) |
EndedAt: 2023-10-12 11:08:19 -0400 (Thu, 12 Oct 2023) |
EllapsedTime: 266.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: ccTutorial.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:ccTutorial.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings ccTutorial_1.38.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.17-data-experiment/meat/ccTutorial.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: x86_64-pc-linux-gnu (64-bit) * R was compiled by gcc (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0 GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0 * running under: Ubuntu 22.04.3 LTS * using session charset: UTF-8 * checking for file ‘ccTutorial/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘ccTutorial’ version ‘1.38.0’ * 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 for sufficient/correct file permissions ... OK * checking whether package ‘ccTutorial’ can be installed ... OK * checking installed package size ... NOTE installed size is 423.6Mb sub-directories of 1Mb or more: PairData 193.4Mb data 77.1Mb exonerateData 117.4Mb expression 30.6Mb vignettes 4.8Mb * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE Package listed in more than one of Depends, Imports, Suggests, Enhances: ‘Biobase’ A package should be listed in only one of these fields. * 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 loading without being on the library search path ... OK * checking startup messages can be suppressed ... NOTE groupGOTerms: GOBPTerm, GOMFTerm, GOCCTerm environments built. It looks like this package (or a package it requires) has a startup message which cannot be suppressed: see ?packageStartupMessage. * checking dependencies in R code ... NOTE Packages in Depends field not imported from: ‘Ringo’ ‘affy’ ‘topGO’ These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. * 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 line endings in Makefiles ... OK * checking for GNU extensions in Makefiles ... OK * checking include directives in Makefiles ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed X 11.368 0.412 11.78 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... ‘ccTutorial.Rnw’... OK ‘ccTutorialSupplement.Rnw’... OK NONE * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 4 NOTEs See ‘/home/biocbuild/bbs-3.17-data-experiment/meat/ccTutorial.Rcheck/00check.log’ for details.
ccTutorial.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL ccTutorial ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/site-library’ * installing *source* package ‘ccTutorial’ ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading groupGOTerms: GOBPTerm, GOMFTerm, GOCCTerm environments built. ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location groupGOTerms: GOBPTerm, GOMFTerm, GOCCTerm environments built. ** testing if installed package can be loaded from final location groupGOTerms: GOBPTerm, GOMFTerm, GOCCTerm environments built. ** testing if installed package keeps a record of temporary installation path * DONE (ccTutorial)
ccTutorial.Rcheck/ccTutorial-Ex.timings
name | user | system | elapsed | |
X | 11.368 | 0.412 | 11.780 | |
arrayGenesToProbeSets | 0.036 | 0.004 | 0.040 | |
barreraExpressionX | 0.097 | 0.000 | 0.096 | |
chersX | 0.622 | 0.004 | 0.626 | |
mm9g2p | 1.793 | 0.076 | 1.868 | |
mm9gene2GO | 0.029 | 0.003 | 0.031 | |
mm9genes | 0.080 | 0.000 | 0.081 | |
probeAnno | 0 | 0 | 0 | |