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This page was generated on 2024-06-11 15:42 -0400 (Tue, 11 Jun 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" 4679
palomino4Windows Server 2022 Datacenterx644.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" 4414
merida1macOS 12.7.4 Montereyx86_644.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" 4441
kjohnson1macOS 13.6.6 Venturaarm644.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" 4394
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 1691/2239HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RESOLVE 1.7.0  (landing page)
Luca De Sano
Snapshot Date: 2024-06-09 14:00 -0400 (Sun, 09 Jun 2024)
git_url: https://git.bioconductor.org/packages/RESOLVE
git_branch: devel
git_last_commit: fe17157
git_last_commit_date: 2024-04-30 11:45:25 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.4 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published


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: 1.7.0
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_1.7.0.tar.gz
StartedAt: 2024-06-10 08:44:51 -0400 (Mon, 10 Jun 2024)
EndedAt: 2024-06-10 09:09:20 -0400 (Mon, 10 Jun 2024)
EllapsedTime: 1468.9 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_1.7.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/RESOLVE.Rcheck’
* using R version 4.4.0 Patched (2024-04-24 r86482)
* 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 12.7.4
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RESOLVE/DESCRIPTION’ ... OK
* this is package ‘RESOLVE’ version ‘1.7.0’
* 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 code 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  156.904  1.039 177.836
signaturesCV            123.644  0.518 134.386
signaturesDecomposition  90.986  0.482 100.960
signaturesAssignment     47.876  0.232  56.072
getMNVCounts             30.679  0.192  38.360
getIDCounts              14.949  0.738  17.107
groupsIDPlot             11.042  0.074  12.517
groupsMNVPlot            10.180  0.223  11.647
groupsSBSPlot             8.584  0.145   9.841
signaturesIDPlot          7.700  0.061   8.384
groupsCNPlot              7.144  0.082   7.907
signaturesMNVPlot         4.888  0.037   5.321
patientsIDPlot            4.870  0.029   5.154
signaturesCNPlot          4.739  0.032   5.157
groupsCXPlot              4.661  0.105   5.289
getSBSCounts              2.801  1.538   6.721
* 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 version 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup"
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 
240.827   3.027 289.304 

Example timings

RESOLVE.Rcheck/RESOLVE-Ex.timings

nameusersystemelapsed
getCNCounts0.0350.0040.046
getIDCounts14.949 0.73817.107
getMNVCounts30.679 0.19238.360
getSBSCounts2.8011.5386.721
groupsCNPlot7.1440.0827.907
groupsCXPlot4.6610.1055.289
groupsIDPlot11.042 0.07412.517
groupsMNVPlot10.180 0.22311.647
groupsSBSPlot8.5840.1459.841
patientsCNPlot3.2180.0193.709
patientsCXPlot1.5280.0111.722
patientsIDPlot4.8700.0295.154
patientsMNVPlot3.1720.0173.268
patientsSBSPlot2.1120.0152.304
signaturesAssignment47.876 0.23256.072
signaturesCNPlot4.7390.0325.157
signaturesCV123.644 0.518134.386
signaturesCXPlot2.2630.0152.469
signaturesDecomposition 90.986 0.482100.960
signaturesIDPlot7.7000.0618.384
signaturesMNVPlot4.8880.0375.321
signaturesSBSPlot3.1460.0243.440
signaturesSignificance156.904 1.039177.836