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This page was generated on 2024-03-28 11:32:35 -0400 (Thu, 28 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson1macOS 13.6.1 Venturaarm644.3.3 (2024-02-29) -- "Angel Food Cake" 4376
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 2204/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
uncoverappLib 1.12.0  (landing page)
Emanuela Iovino
Snapshot Date: 2024-03-26 09:00:03 -0400 (Tue, 26 Mar 2024)
git_url: https://git.bioconductor.org/packages/uncoverappLib
git_branch: RELEASE_3_18
git_last_commit: 2424917
git_last_commit_date: 2023-10-24 11:24:30 -0400 (Tue, 24 Oct 2023)
kjohnson1macOS 13.6.1 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for uncoverappLib on kjohnson1


To the developers/maintainers of the uncoverappLib package:
- 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: uncoverappLib
Version: 1.12.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:uncoverappLib.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings uncoverappLib_1.12.0.tar.gz
StartedAt: 2024-03-28 06:03:52 -0400 (Thu, 28 Mar 2024)
EndedAt: 2024-03-28 06:12:12 -0400 (Thu, 28 Mar 2024)
EllapsedTime: 500.0 seconds
RetCode: 0
Status:   OK  
CheckDir: uncoverappLib.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:uncoverappLib.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings uncoverappLib_1.12.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/uncoverappLib.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: aarch64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.6.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘uncoverappLib/DESCRIPTION’ ... OK
* this is package ‘uncoverappLib’ version ‘1.12.0’
* 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 ‘uncoverappLib’ 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 ... NOTE
buildInput : riarrange.df: no visible binding for global variable
  'nucleotide'
buildInput : riarrange.df: no visible binding for global variable
  'count'
buildInput: no visible binding for global variable 'seqnames.1'
buildInput: no visible binding for global variable 'start.1'
buildInput: no visible binding for global variable 'end.1'
buildInput: no visible binding for global variable 'width.1'
buildInput: no visible binding for global variable 'strand.1'
buildInput : statistical_operation: no visible binding for global
  variable 'SYMBOL'
buildInput : statistical_operation: no visible binding for global
  variable 'value'
buildInput : statistical_operation: no visible global function
  definition for 'median'
buildInput : statistical_operation: no visible binding for global
  variable '.'
Undefined global functions or variables:
  . SYMBOL count end.1 median nucleotide seqnames.1 start.1 strand.1
  value width.1
Consider adding
  importFrom("stats", "median")
to your NAMESPACE file.
* 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
buildInput 6.705  0.249   7.047
* 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
  ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/uncoverappLib.Rcheck/00check.log’
for details.



Installation output

uncoverappLib.Rcheck/00install.out

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##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL uncoverappLib
###
##############################################################################
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’
* installing *source* package ‘uncoverappLib’ ...
** 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 (uncoverappLib)

Tests output


Example timings

uncoverappLib.Rcheck/uncoverappLib-Ex.timings

nameusersystemelapsed
buildInput6.7050.2497.047
getAnnotationFiles0.4880.0370.530
run.uncoverapp000
uncoverAPP0.0010.0000.000