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This page was generated on 2023-10-12 14:51:35 -0400 (Thu, 12 Oct 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.2 LTS)x86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4626
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 124/421HostnameOS / ArchINSTALLBUILDCHECK
FieldEffectCrc 1.10.0  (landing page)
Christopher Dampier
Snapshot Date: 2023-10-12 07:30:02 -0400 (Thu, 12 Oct 2023)
git_url: https://git.bioconductor.org/packages/FieldEffectCrc
git_branch: RELEASE_3_17
git_last_commit: fbeb3ba
git_last_commit_date: 2023-04-25 10:48:42 -0400 (Tue, 25 Apr 2023)
nebbiolo1Linux (Ubuntu 22.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published

CHECK results for FieldEffectCrc on nebbiolo1


To the developers/maintainers of the FieldEffectCrc 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: FieldEffectCrc
Version: 1.10.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:FieldEffectCrc.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings FieldEffectCrc_1.10.0.tar.gz
StartedAt: 2023-10-12 11:20:32 -0400 (Thu, 12 Oct 2023)
EndedAt: 2023-10-12 11:27:42 -0400 (Thu, 12 Oct 2023)
EllapsedTime: 430.3 seconds
RetCode: 0
Status:   OK  
CheckDir: FieldEffectCrc.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:FieldEffectCrc.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings FieldEffectCrc_1.10.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.17-data-experiment/meat/FieldEffectCrc.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
* running under: Ubuntu 22.04.3 LTS
* using session charset: UTF-8
* checking for file ‘FieldEffectCrc/DESCRIPTION’ ... OK
* this is package ‘FieldEffectCrc’ version ‘1.10.0’
* 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 ‘FieldEffectCrc’ 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 loading without being on the library search path ... OK
* checking startup messages can be suppressed ... 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
FieldEffectCrc 19.455  2.676  23.423
cohort_A        8.059  1.213   9.930
cohort_C        4.664  0.766   6.127
reorder_assays  4.586  0.792   5.800
make_txi        4.400  0.688   5.365
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘runTests.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘FieldEffectCrc.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

FieldEffectCrc.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL FieldEffectCrc
###
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* installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/site-library’
* installing *source* package ‘FieldEffectCrc’ ...
** 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 (FieldEffectCrc)

Tests output

FieldEffectCrc.Rcheck/tests/runTests.Rout


R version 4.3.1 (2023-06-16) -- "Beagle Scouts"
Copyright (C) 2023 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.

> BiocGenerics:::testPackage("FieldEffectCrc")
see ?FieldEffectCrc and browseVignettes('FieldEffectCrc') for documentation
loading from cache
require("SummarizedExperiment")
see ?FieldEffectCrc and browseVignettes('FieldEffectCrc') for documentation
loading from cache
see ?FieldEffectCrc and browseVignettes('FieldEffectCrc') for documentation
loading from cache


RUNIT TEST PROTOCOL -- Thu Oct 12 11:25:15 2023 
*********************************************** 
Number of test functions: 3 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
FieldEffectCrc RUnit Tests - 3 test functions, 0 errors, 0 failures
Number of test functions: 3 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
 15.053   1.116  17.393 

Example timings

FieldEffectCrc.Rcheck/FieldEffectCrc-Ex.timings

nameusersystemelapsed
FieldEffectCrc19.455 2.67623.423
cohort_A8.0591.2139.930
cohort_B2.9640.5174.194
cohort_C4.6640.7666.127
make_txi4.4000.6885.365
reorder_assays4.5860.7925.800