Back to Multiple platform build/check report for BioC 3.14 |
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This page was generated on 2022-04-13 12:05:27 -0400 (Wed, 13 Apr 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
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 Guitar package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Guitar.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 843/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Guitar 2.10.0 (landing page) Jia Meng
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: Guitar |
Version: 2.10.0 |
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:Guitar.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings Guitar_2.10.0.tar.gz |
StartedAt: 2022-04-12 07:44:22 -0400 (Tue, 12 Apr 2022) |
EndedAt: 2022-04-12 07:49:34 -0400 (Tue, 12 Apr 2022) |
EllapsedTime: 312.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: Guitar.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:Guitar.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings Guitar_2.10.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/Guitar.Rcheck’ * using R version 4.1.3 (2022-03-10) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘Guitar/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘Guitar’ version ‘2.10.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... NOTE Depends: includes the non-default packages: 'GenomicFeatures', 'rtracklayer', 'AnnotationDbi', 'GenomicRanges', 'magrittr', 'ggplot2', 'knitr', 'dplyr' Adding so many packages to the search path is excessive and importing selectively is preferable. * 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 ‘Guitar’ can be installed ... OK * checking installed package size ... NOTE installed size is 15.9Mb sub-directories of 1Mb or more: extdata 15.7Mb * 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 Package in Depends field not imported from: ‘knitr’ These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. Unexported object imported by a ':::' call: ‘GenomicRanges:::get_out_of_bound_index’ 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 ... NOTE .extractComponent: no visible binding for global variable ‘gene_id’ .generate_guitar_coordinates: no visible global function definition for ‘makeGuitarCoordsFromTxDb’ .generate_guitar_coordinates: no visible binding for global variable ‘noBins’ Undefined global functions or variables: gene_id makeGuitarCoordsFromTxDb noBins * 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 Examples with CPU (user + system) or elapsed time > 5s user system elapsed GuitarPlot 27.149 0.264 27.415 GRangesListmapToTranscripts 14.092 0.272 14.368 samplePoints 12.324 0.024 12.347 normalize 11.101 0.080 11.180 makeGuitarTxdb 9.984 0.032 10.016 * 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: 4 NOTEs See ‘/home/biocbuild/bbs-3.14-bioc/meat/Guitar.Rcheck/00check.log’ for details.
Guitar.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL Guitar ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’ * installing *source* package ‘Guitar’ ... ** 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 (Guitar)
Guitar.Rcheck/Guitar-Ex.timings
name | user | system | elapsed | |
GRangesListmapToTranscripts | 14.092 | 0.272 | 14.368 | |
GuitarPlot | 27.149 | 0.264 | 27.415 | |
makeGuitarTxdb | 9.984 | 0.032 | 10.016 | |
normalize | 11.101 | 0.080 | 11.180 | |
samplePoints | 12.324 | 0.024 | 12.347 | |