Back to Multiple platform build/check report for BioC 3.19:   simplified   long
ABCDEFGHIJKLMNOPQ[R]STUVWXYZ

This page was generated on 2024-03-04 11:39:48 -0500 (Mon, 04 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_64R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" 4676
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2024-01-14 r85805 ucrt) -- "Unsuffered Consequences" 4414
merida1macOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" 4441
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-01-16 r85812) -- "Unsuffered Consequences" 4417
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 1708/2251HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RESOLVE 1.5.0  (landing page)
Luca De Sano
Snapshot Date: 2024-03-01 14:00:22 -0500 (Fri, 01 Mar 2024)
git_url: https://git.bioconductor.org/packages/RESOLVE
git_branch: devel
git_last_commit: 7edef13
git_last_commit_date: 2023-10-24 11:44:49 -0500 (Tue, 24 Oct 2023)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  NO, package depends on 'MutationalPatterns' which is not available
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  NO, package depends on 'MutationalPatterns' which is not available
merida1macOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  NO, package depends on 'MutationalPatterns' which is not available
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    OK  

CHECK results for RESOLVE on merida1


To the developers/maintainers of the RESOLVE package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RESOLVE.git to reflect on this report. See Troubleshooting Build Report for more information.
- 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.

raw results


Summary

Package: RESOLVE
Version: 1.5.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RESOLVE.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RESOLVE_1.5.0.tar.gz
StartedAt: 2024-03-02 09:20:25 -0500 (Sat, 02 Mar 2024)
EndedAt: 2024-03-02 09:44:39 -0500 (Sat, 02 Mar 2024)
EllapsedTime: 1453.9 seconds
RetCode: 0
Status:   OK  
CheckDir: RESOLVE.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RESOLVE.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RESOLVE_1.5.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/RESOLVE.Rcheck’
* using R Under development (unstable) (2024-01-16 r85808)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RESOLVE/DESCRIPTION’ ... OK
* this is package ‘RESOLVE’ version ‘1.5.0’
* 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 ‘RESOLVE’ 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
signaturesSignificance  147.209  0.973 171.466
signaturesCV            113.055  0.725 131.132
signaturesDecomposition  82.312  0.654  96.186
signaturesAssignment     44.761  0.322  55.548
getMNVCounts             29.879  0.306  35.636
getIDCounts              12.971  0.572  16.850
groupsIDPlot             10.386  0.119  12.969
groupsMNVPlot             8.766  0.212  10.661
groupsSBSPlot             8.020  0.085   9.613
signaturesIDPlot          6.922  0.136   8.177
groupsCNPlot              6.723  0.116   8.232
patientsIDPlot            4.552  0.049   5.418
signaturesCNPlot          4.389  0.036   5.033
signaturesMNVPlot         4.363  0.042   5.100
groupsCXPlot              4.323  0.071   5.422
getSBSCounts              2.595  1.631   7.001
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... 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

RESOLVE.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL RESOLVE
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’
* installing *source* package ‘RESOLVE’ ...
** 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 (RESOLVE)

Tests output

RESOLVE.Rcheck/tests/testthat.Rout


R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> Sys.setenv("R_TESTS" = "")
> 
> library("testthat")
> library("RESOLVE")
> 
> test_check("RESOLVE")
[ FAIL 0 | WARN 203 | SKIP 0 | PASS 6 ]

[ FAIL 0 | WARN 203 | SKIP 0 | PASS 6 ]
> 
> proc.time()
   user  system elapsed 
234.143   3.471 297.246 

Example timings

RESOLVE.Rcheck/RESOLVE-Ex.timings

nameusersystemelapsed
getCNCounts0.0340.0090.051
getIDCounts12.971 0.57216.850
getMNVCounts29.879 0.30635.636
getSBSCounts2.5951.6317.001
groupsCNPlot6.7230.1168.232
groupsCXPlot4.3230.0715.422
groupsIDPlot10.386 0.11912.969
groupsMNVPlot 8.766 0.21210.661
groupsSBSPlot8.0200.0859.613
patientsCNPlot4.0650.0404.909
patientsCXPlot1.3660.0141.618
patientsIDPlot4.5520.0495.418
patientsMNVPlot2.9580.0293.557
patientsSBSPlot1.8330.0193.826
signaturesAssignment44.761 0.32255.548
signaturesCNPlot4.3890.0365.033
signaturesCV113.055 0.725131.132
signaturesCXPlot2.0190.0212.259
signaturesDecomposition82.312 0.65496.186
signaturesIDPlot6.9220.1368.177
signaturesMNVPlot4.3630.0425.100
signaturesSBSPlot2.9060.0283.406
signaturesSignificance147.209 0.973171.466