Back to Multiple platform build/check report for BioC 3.15 |
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This page was generated on 2022-10-19 13:23:29 -0400 (Wed, 19 Oct 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4386 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" | 4138 |
merida1 | macOS 10.14.6 Mojave | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4205 |
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 polyester package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/polyester.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 1477/2140 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
polyester 1.32.0 (landing page) Jack Fu
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: polyester |
Version: 1.32.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:polyester.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings polyester_1.32.0.tar.gz |
StartedAt: 2022-10-19 06:18:13 -0400 (Wed, 19 Oct 2022) |
EndedAt: 2022-10-19 06:21:28 -0400 (Wed, 19 Oct 2022) |
EllapsedTime: 195.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: polyester.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:polyester.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings polyester_1.32.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.15-bioc/meat/polyester.Rcheck’ * using R version 4.2.1 (2022-06-23) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘polyester/DESCRIPTION’ ... OK * this is package ‘polyester’ version ‘1.32.0’ * 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 ‘polyester’ 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 Namespace in Imports field not imported from: ‘zlibbioc’ All declared Imports should be used. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE add_platform_error: no visible binding for global variable ‘model1’ add_platform_error: no visible binding for global variable ‘model2’ add_platform_error: no visible binding for global variable ‘model4’ add_platform_error: no visible binding for global variable ‘model5’ add_platform_error: no visible binding for global variable ‘model3’ add_platform_error: no visible binding for global variable ‘model6’ add_platform_error: no visible binding for global variable ‘model7’ generate_fragments: no visible binding for global variable ‘empirical_density’ generate_fragments: no visible binding for global variable ‘rnaf’ generate_fragments: no visible binding for global variable ‘cdnaf’ simulate_experiment_countmat: no visible global function definition for ‘is’ Undefined global functions or variables: cdnaf empirical_density is model1 model2 model3 model4 model5 model6 model7 rnaf Consider adding importFrom("methods", "is") 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 ... 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed add_gc_bias 14.310 0.111 14.436 create_read_numbers 13.235 0.404 13.653 * 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 ‘/Users/biocbuild/bbs-3.15-bioc/meat/polyester.Rcheck/00check.log’ for details.
polyester.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL polyester ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’ * installing *source* package ‘polyester’ ... ** using staged installation ** R ** data ** 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 (polyester)
polyester.Rcheck/polyester-Ex.timings
name | user | system | elapsed | |
NB | 0.000 | 0.000 | 0.001 | |
add_error | 0.217 | 0.028 | 0.246 | |
add_gc_bias | 14.310 | 0.111 | 14.436 | |
add_platform_error | 0.423 | 0.020 | 0.444 | |
count_transcripts | 0.020 | 0.005 | 0.024 | |
create_read_numbers | 13.235 | 0.404 | 13.653 | |
fpkm_to_counts | 0.075 | 0.003 | 0.078 | |
generate_fragments | 0.488 | 0.019 | 0.508 | |
getAttributeField | 1.828 | 0.090 | 1.922 | |
get_params | 0.082 | 0.003 | 0.085 | |
get_reads | 0.273 | 0.013 | 0.285 | |
reverse_complement | 0.228 | 0.012 | 0.241 | |
seq_gtf | 0.001 | 0.001 | 0.001 | |
simulate_experiment | 0.001 | 0.000 | 0.000 | |
simulate_experiment_countmat | 0 | 0 | 0 | |
simulate_experiment_empirical | 0.000 | 0.000 | 0.001 | |
write_reads | 0.238 | 0.016 | 0.253 | |