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This page was generated on 2021-10-16 15:58:43 -0400 (Sat, 16 Oct 2021).

CHECK results for RNAmodR.Data on malbec2

To the developers/maintainers of the RNAmodR.Data package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 314/406HostnameOS / ArchINSTALLBUILDCHECK
RNAmodR.Data 1.6.0  (landing page)
Felix G.M. Ernst
Snapshot Date: 2021-10-16 09:30:07 -0400 (Sat, 16 Oct 2021)
git_url: https://git.bioconductor.org/packages/RNAmodR.Data
git_branch: RELEASE_3_13
git_last_commit: 3823c8d
git_last_commit_date: 2021-05-19 12:08:38 -0400 (Wed, 19 May 2021)
malbec2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: RNAmodR.Data
Version: 1.6.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:RNAmodR.Data.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings RNAmodR.Data_1.6.0.tar.gz
StartedAt: 2021-10-16 13:51:35 -0400 (Sat, 16 Oct 2021)
EndedAt: 2021-10-16 13:57:21 -0400 (Sat, 16 Oct 2021)
EllapsedTime: 346.6 seconds
RetCode: 0
Status:   OK  
CheckDir: RNAmodR.Data.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:RNAmodR.Data.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings RNAmodR.Data_1.6.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-data-experiment/meat/RNAmodR.Data.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RNAmodR.Data/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RNAmodR.Data’ version ‘1.6.0’
* 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 ... NOTE
Found the following hidden files and directories:
  .git_fetch_output.txt
  .git_merge_output.txt
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘RNAmodR.Data’ 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
Examples with CPU (user + system) or elapsed time > 5s
                       user system elapsed
RNAmodR.Data.AAS     29.123  0.336  32.779
RNAmodR.Data.example 13.876  0.107  15.628
RNAmodR.Data.RMS     12.097  0.104  13.477
example.man.fasta     5.002  0.056   5.642
* 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 ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.13-data-experiment/meat/RNAmodR.Data.Rcheck/00check.log’
for details.



Installation output

RNAmodR.Data.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL RNAmodR.Data
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’
* installing *source* package ‘RNAmodR.Data’ ...
** 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
snapshotDate(): 2021-05-18
** testing if installed package can be loaded from final location
snapshotDate(): 2021-05-18
** testing if installed package keeps a record of temporary installation path
* DONE (RNAmodR.Data)

Tests output

RNAmodR.Data.Rcheck/tests/testthat.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-pc-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(RNAmodR.Data)
Loading required package: ExperimentHub
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
    tapply, union, unique, unsplit, which.max, which.min

Loading required package: AnnotationHub
Loading required package: BiocFileCache
Loading required package: dbplyr
Loading required package: ExperimentHubData
Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    I, expand.grid, unname

Loading required package: AnnotationHubData
Loading required package: IRanges
Loading required package: GenomicRanges
Loading required package: GenomeInfoDb
snapshotDate(): 2021-05-18
> 
> test_check("RNAmodR.Data")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]
> 
> proc.time()
   user  system elapsed 
 12.938   0.359  14.179 

Example timings

RNAmodR.Data.Rcheck/RNAmodR.Data-Ex.timings

nameusersystemelapsed
RNAmodR.Data.AAS29.123 0.33632.779
RNAmodR.Data.RMS12.097 0.10413.477
RNAmodR.Data.example13.876 0.10715.628
RNAmodR.Data.snoRNAdb1.9610.0202.161
example.man.fasta5.0020.0565.642