| Back to Multiple platform build/check report for BioC 3.17 | 
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This page was generated on 2023-04-12 10:55:39 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs | 
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) | x86_64 | 4.3.0 alpha (2023-04-03 r84154) | 4547 | 
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | R Under development (unstable) (2023-02-14 r83833) -- "Unsuffered Consequences" | 4333 | 
| 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 | ||||
| To the developers/maintainers of the nullranges package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/nullranges.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. | 
| Package 1389/2207 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| nullranges 1.5.18  (landing page) Michael Love 
 | nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) / x86_64 | ERROR | ERROR | skipped | |||||||||
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | ||||||||||
| Package: nullranges | 
| Version: 1.5.18 | 
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:nullranges.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings nullranges_1.5.18.tar.gz | 
| StartedAt: 2023-04-12 07:56:24 -0400 (Wed, 12 Apr 2023) | 
| EndedAt: 2023-04-12 08:17:30 -0400 (Wed, 12 Apr 2023) | 
| EllapsedTime: 1265.9 seconds | 
| RetCode: 0 | 
| Status: OK | 
| CheckDir: nullranges.Rcheck | 
| Warnings: 0 | 
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### Running command:
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###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:nullranges.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings nullranges_1.5.18.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/nullranges.Rcheck’
* using R Under development (unstable) (2023-02-14 r83833)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0
    GNU Fortran (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0
* running under: Ubuntu 20.04.6 LTS
* using session charset: UTF-8
* checking for file ‘nullranges/DESCRIPTION’ ... OK
* this is package ‘nullranges’ version ‘1.5.18’
* 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 ‘nullranges’ 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 dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘tidySummarizedExperiment’
  All declared Imports should be used.
* 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 ...
  ‘bootRanges.Rmd’ using ‘UTF-8’... OK
  ‘matchRanges.Rmd’ using ‘UTF-8’... OK
  ‘matching_ginteractions.Rmd’ using ‘UTF-8’... OK
  ‘matching_granges.Rmd’ using ‘UTF-8’... OK
  ‘matching_pool_set.Rmd’ using ‘UTF-8’... OK
  ‘nullranges.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.17-bioc/meat/nullranges.Rcheck/00check.log’
for details.
nullranges.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL nullranges ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/site-library’ * installing *source* package ‘nullranges’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (nullranges)
nullranges.Rcheck/tests/testthat.Rout
R Under development (unstable) (2023-02-14 r83833) -- "Unsuffered Consequences"
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Platform: x86_64-pc-linux-gnu (64-bit)
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Type 'license()' or 'licence()' for distribution details.
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> library(testthat)
> library(nullranges)
> 
> test_check("nullranges")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 9 ]
> 
> proc.time()
   user  system elapsed 
 18.002   1.560  19.461 
nullranges.Rcheck/nullranges-Ex.timings
| name | user | system | elapsed | |
| MatchedDataFrame | 2.439 | 0.040 | 2.341 | |
| MatchedGInteractions | 0.689 | 0.004 | 0.622 | |
| MatchedGRanges | 0.654 | 0.012 | 0.595 | |
| bootRanges | 0.437 | 0.000 | 0.438 | |
| combnCov | 0.004 | 0.000 | 0.004 | |
| covariates | 0.134 | 0.000 | 0.112 | |
| focal | 0.185 | 0.000 | 0.151 | |
| indices | 0.177 | 0.004 | 0.144 | |
| makeExampleMatchedDataSet | 1.788 | 0.048 | 1.709 | |
| matchRanges | 1.539 | 0.019 | 1.154 | |
| matched | 0.146 | 0.001 | 0.118 | |
| matchedClass | 0.165 | 0.000 | 0.136 | |
| matchedData | 0.139 | 0.003 | 0.111 | |
| method | 0.163 | 0.020 | 0.147 | |
| oneRegionSegment | 0.368 | 0.016 | 0.538 | |
| overview | 0.226 | 0.004 | 0.190 | |
| plotCovariate | 3.428 | 0.180 | 3.541 | |
| plotPropensity | 1.583 | 0.152 | 1.674 | |
| plotSegment | 1.832 | 0.104 | 1.936 | |
| pool | 0.144 | 0.004 | 0.117 | |
| reduceSegment | 0.270 | 0.004 | 0.275 | |
| segmentDensity | 0.44 | 0.00 | 0.44 | |
| unmatched | 0.178 | 0.000 | 0.142 | |
| withReplacement | 0.118 | 0.000 | 0.094 | |