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This page was generated on 2021-10-19 15:52:17 -0400 (Tue, 19 Oct 2021).

CHECK results for cnvGSAdata on nebbiolo2

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

raw results

Package 67/404HostnameOS / ArchINSTALLBUILDCHECK
cnvGSAdata 1.29.0  (landing page)
Joseph Lugo
Snapshot Date: 2021-10-19 09:30:02 -0400 (Tue, 19 Oct 2021)
git_url: https://git.bioconductor.org/packages/cnvGSAdata
git_branch: master
git_last_commit: 89dfbad
git_last_commit_date: 2021-05-19 11:34:06 -0400 (Wed, 19 May 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published

Summary

Package: cnvGSAdata
Version: 1.29.0
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:cnvGSAdata.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings cnvGSAdata_1.29.0.tar.gz
StartedAt: 2021-10-19 12:10:49 -0400 (Tue, 19 Oct 2021)
EndedAt: 2021-10-19 12:11:36 -0400 (Tue, 19 Oct 2021)
EllapsedTime: 47.3 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: cnvGSAdata.Rcheck
Warnings: 1

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:cnvGSAdata.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings cnvGSAdata_1.29.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.14-data-experiment/meat/cnvGSAdata.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 ‘cnvGSAdata/DESCRIPTION’ ... OK
* this is package ‘cnvGSAdata’ version ‘1.29.0’
* 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 ‘cnvGSAdata’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  9.1Mb
  sub-directories of 1Mb or more:
    data      5.2Mb
    extdata   3.8Mb
* checking package 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 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 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... WARNING
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                              old_size new_size compress
  cnvGSA_input_example.RData     2.4Mb    1.2Mb       xz
  cnvGSA_output_example.RData    2.5Mb    768Kb       xz
  gs_data_example.RData          310Kb    207Kb       xz
* checking examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 1 NOTE
See
  ‘/home/biocbuild/bbs-3.14-data-experiment/meat/cnvGSAdata.Rcheck/00check.log’
for details.



Installation output

cnvGSAdata.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL cnvGSAdata
###
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* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘cnvGSAdata’ ...
** using staged installation
** data
** inst
** help
*** installing help indices
** building package indices
** 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 (cnvGSAdata)

Tests output


Example timings

cnvGSAdata.Rcheck/cnvGSAdata-Ex.timings

nameusersystemelapsed
cnv_AGP_demo.txt0.0210.0000.021
enrGMT_AGP_demo.gmt1.2900.1151.406
enrGeneric_AGP_demo.txt0.0010.0000.001
gene_ID_demo.txt0.1090.0030.113
kl_gene_AGP_demo.txt0.0010.0000.001
kl_loci_AGP_demo.txt0.0010.0000.001
ph_AGP_demo.txt0.0090.0010.009