Back to Multiple platform build/check report for BioC 3.16
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This page was generated on 2022-06-30 11:08:54 -0400 (Thu, 30 Jun 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.2.0 Patched (2022-06-02 r82447) -- "Vigorous Calisthenics" 4343
palomino4Windows Server 2022 Datacenterx644.2.0 Patched (2022-06-02 r82447 ucrt) -- "Vigorous Calisthenics" 4147
lconwaymacOS 12.2.1 Montereyx86_644.2.0 Patched (2022-05-29 r82424) -- "Vigorous Calisthenics" 4159
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

CHECK results for TRESS on lconway


To the developers/maintainers of the TRESS package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/TRESS.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.

raw results

Package 2039/2124HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
TRESS 1.3.0  (landing page)
Zhenxing Guo
Snapshot Date: 2022-06-29 14:00:05 -0400 (Wed, 29 Jun 2022)
git_url: https://git.bioconductor.org/packages/TRESS
git_branch: master
git_last_commit: 0126d61
git_last_commit_date: 2022-04-26 12:18:58 -0400 (Tue, 26 Apr 2022)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
lconwaymacOS 12.2.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: TRESS
Version: 1.3.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:TRESS.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings TRESS_1.3.0.tar.gz
StartedAt: 2022-06-29 23:41:37 -0400 (Wed, 29 Jun 2022)
EndedAt: 2022-06-29 23:47:23 -0400 (Wed, 29 Jun 2022)
EllapsedTime: 346.3 seconds
RetCode: 0
Status:   OK  
CheckDir: TRESS.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:TRESS.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings TRESS_1.3.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/TRESS.Rcheck’
* using R version 4.2.0 Patched (2022-05-29 r82424)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘TRESS/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘TRESS’ version ‘1.3.0’
* package encoding: UTF-8
* 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 ‘TRESS’ 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 ... OK
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                     user system elapsed
TRESS_DMRtest      34.459  4.492  24.232
CallDMRs.paramEsti 34.171  3.869  23.648
CoefName           26.486  4.033  21.732
DMRInfer           10.368  1.834   0.484
CallPeaks.multiRep  7.727  1.578   2.169
* 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: OK


Installation output

TRESS.Rcheck/00install.out

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL TRESS
###
##############################################################################
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’
* installing *source* package ‘TRESS’ ...
** 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 (TRESS)

Tests output


Example timings

TRESS.Rcheck/TRESS-Ex.timings

nameusersystemelapsed
CallCandidates1.7720.1491.928
CallDMRs.paramEsti34.171 3.86923.648
CallPeaks.multiRep7.7271.5782.169
CallPeaks.oneRep0.0810.0300.112
CallPeaks.paramEsti1.9290.0271.966
CoefName26.486 4.03321.732
DMRInfer10.368 1.834 0.484
DivideBins000
ShowOnePeak0.2120.0400.257
TRESS_DMRfit000
TRESS_DMRtest34.459 4.49224.232
TRESS_peak0.0000.0010.000
filterRegions0.0090.0180.027
findBumps0.0710.0690.141
meRatio1.0080.2581.277