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This page was generated on 2023-02-08 01:15:21 -0000 (Wed, 08 Feb 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng1Linux (Ubuntu 22.04.1 LTS)aarch64R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" 4164
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CHECK results for proDA on kunpeng1


To the developers/maintainers of the proDA package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/proDA.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 1515/2164HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
proDA 1.13.0  (landing page)
Constantin Ahlmann-Eltze
Snapshot Date: 2023-02-06 00:12:45 -0000 (Mon, 06 Feb 2023)
git_url: https://git.bioconductor.org/packages/proDA
git_branch: master
git_last_commit: 56615c9
git_last_commit_date: 2022-11-01 15:20:16 -0000 (Tue, 01 Nov 2022)
kunpeng1Linux (Ubuntu 22.04.1 LTS) / aarch64  OK    OK    OK  

Summary

Package: proDA
Version: 1.13.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:proDA.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings proDA_1.13.0.tar.gz
StartedAt: 2023-02-07 11:57:19 -0000 (Tue, 07 Feb 2023)
EndedAt: 2023-02-07 12:05:09 -0000 (Tue, 07 Feb 2023)
EllapsedTime: 470.8 seconds
RetCode: 0
Status:   OK  
CheckDir: proDA.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:proDA.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings proDA_1.13.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/proDA.Rcheck’
* using R Under development (unstable) (2023-01-14 r83615)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.1 LTS
* using session charset: UTF-8
* checking for file ‘proDA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘proDA’ version ‘1.13.0’
* 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 ‘proDA’ 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 files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘Introduction.Rmd’ using ‘UTF-8’... OK
  ‘data-import.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

proDA.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL proDA
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/library’
* installing *source* package ‘proDA’ ...
** using staged installation
** R
** 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 (proDA)

Tests output

proDA.Rcheck/tests/testthat.Rout


R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)

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.

> library(testthat)
> library(proDA)
> 
> test_check("proDA")
[ FAIL 0 | WARN 0 | SKIP 1 | PASS 126 ]

══ Skipped tests ═══════════════════════════════════════════════════════════════
• Very slow (1)

[ FAIL 0 | WARN 0 | SKIP 1 | PASS 126 ]
> 
> proc.time()
   user  system elapsed 
156.444   0.375 168.134 

Example timings

proDA.Rcheck/proDA-Ex.timings

nameusersystemelapsed
abundances1.2190.0641.450
as_replicate000
cash-proDAFit-method0.9570.0040.988
coefficient_variance_matrices0.9570.0041.014
coefficients0.9440.0000.947
convergence0.9330.0000.936
dist_approx1.6310.0001.698
dist_approx_impl1.4990.0001.776
feature_parameters0.9340.0000.980
generate_synthetic_data0.0330.0000.034
hyper_parameters0.9250.0001.184
invprobit0.0050.0000.005
median_normalization0.0040.0000.005
mply_dbl0.0060.0000.007
pd_lm0.0150.0000.015
pd_row_t_test2.3580.0042.528
proDA2.2880.0002.523
reference_level0.7940.0000.815
result_names0.9370.0040.956
test_diff3.8710.0004.100