Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:07 -0400 (Fri, 15 Oct 2021).
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? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 830/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Guitar 2.8.0 (landing page) Jia Meng
| nebbiolo1 | Linux (Ubuntu 20.04.2 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: 2.8.0 |
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Guitar.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings Guitar_2.8.0.tar.gz |
StartedAt: 2021-10-15 00:12:02 -0400 (Fri, 15 Oct 2021) |
EndedAt: 2021-10-15 00:23:08 -0400 (Fri, 15 Oct 2021) |
EllapsedTime: 666.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: Guitar.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Guitar.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings Guitar_2.8.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/Guitar.Rcheck' * using R version 4.1.1 (2021-08-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'Guitar/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'Guitar' version '2.8.0' * 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 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 * 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 ... 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 ... ** running examples for arch 'i386' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed GuitarPlot 46.29 0.36 46.66 samplePoints 25.34 0.00 25.35 makeGuitarTxdb 24.84 0.01 24.86 normalize 23.66 0.05 23.70 GRangesListmapToTranscripts 20.25 0.82 32.31 ** running examples for arch 'x64' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed GuitarPlot 37.88 0.08 38.00 samplePoints 20.72 0.01 20.73 GRangesListmapToTranscripts 19.41 0.07 19.48 makeGuitarTxdb 18.04 0.00 18.05 normalize 16.38 0.02 16.39 * 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 'C:/Users/biocbuild/bbs-3.13-bioc/meat/Guitar.Rcheck/00check.log' for details.
Guitar.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/Guitar_2.8.0.tar.gz && rm -rf Guitar.buildbin-libdir && mkdir Guitar.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Guitar.buildbin-libdir Guitar_2.8.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL Guitar_2.8.0.zip && rm Guitar_2.8.0.tar.gz Guitar_2.8.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 1 3629k 1 49975 0 0 246k 0 0:00:14 --:--:-- 0:00:14 246k 100 3629k 100 3629k 0 0 3296k 0 0:00:01 0:00:01 --:--:-- 3299k install for i386 * installing *source* package 'Guitar' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'Guitar' finding HTML links ... done GRangesListmapToTranscripts html GuitarPlot html makeGuitarTxdb html normalize html samplePoints html ** 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 install for x64 * installing *source* package 'Guitar' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'Guitar' as Guitar_2.8.0.zip * DONE (Guitar) * installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library' package 'Guitar' successfully unpacked and MD5 sums checked
Guitar.Rcheck/examples_i386/Guitar-Ex.timings
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Guitar.Rcheck/examples_x64/Guitar-Ex.timings
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