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This page was generated on 2021-10-26 15:52:18 -0400 (Tue, 26 Oct 2021).

CHECK results for hgu2beta7 on nebbiolo2

To the developers/maintainers of the hgu2beta7 package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 174/408HostnameOS / ArchINSTALLBUILDCHECK
hgu2beta7 1.33.0  (landing page)
Bioconductor Package Maintainer
Snapshot Date: 2021-10-26 09:30:02 -0400 (Tue, 26 Oct 2021)
git_url: https://git.bioconductor.org/packages/hgu2beta7
git_branch: master
git_last_commit: b8ff2ec
git_last_commit_date: 2021-05-19 11:25:16 -0400 (Wed, 19 May 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published

Summary

Package: hgu2beta7
Version: 1.33.0
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:hgu2beta7.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings hgu2beta7_1.33.0.tar.gz
StartedAt: 2021-10-26 12:23:52 -0400 (Tue, 26 Oct 2021)
EndedAt: 2021-10-26 12:24:09 -0400 (Tue, 26 Oct 2021)
EllapsedTime: 17.5 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: hgu2beta7.Rcheck
Warnings: 4

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:hgu2beta7.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings hgu2beta7_1.33.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.14-data-experiment/meat/hgu2beta7.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 ‘hgu2beta7/DESCRIPTION’ ... OK
* this is package ‘hgu2beta7’ version ‘1.33.0’
* 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 ‘hgu2beta7’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  7.0Mb
  sub-directories of 1Mb or more:
    data   6.9Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... WARNING
Subdirectory ‘data’ contains no data sets.
* 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
hgu2beta7: no visible binding for global variable ‘hgu2beta7QC’
Undefined global functions or variables:
  hgu2beta7QC
* 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 ... WARNING
'library' or 'require' call not declared from: ‘annotate’
* checking contents of ‘data’ directory ... WARNING
Files not of a type allowed in a ‘data’ directory:
  ‘Rdata.rdb’ ‘Rdata.rds’ ‘Rdata.rdx’
Please use e.g. ‘inst/extdata’ for non-R data files

* checking data for non-ASCII characters ... OK
* checking LazyData ... WARNING
  LazyData DB of 6.9 MB without LazyDataCompression set
  See §1.1.6 of 'Writing R Extensions'
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 4 WARNINGs, 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.14-data-experiment/meat/hgu2beta7.Rcheck/00check.log’
for details.



Installation output

hgu2beta7.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL hgu2beta7
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘hgu2beta7’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** 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 (hgu2beta7)

Tests output


Example timings

hgu2beta7.Rcheck/hgu2beta7-Ex.timings

nameusersystemelapsed
hgu2beta7ACCNUM0.0890.0050.093
hgu2beta7CHR0.0150.0050.021
hgu2beta7CHRLENGTHS0.0010.0000.000
hgu2beta7CHRLOC0.1360.0000.137
hgu2beta7ENZYME0.0170.0000.017
hgu2beta7ENZYME2PROBE0.0020.0000.001
hgu2beta7GENENAME0.0300.0040.033
hgu2beta7GO0.1370.0280.165
hgu2beta7GO2ALLPROBES0.1460.0280.174
hgu2beta7GO2PROBE0.0330.0000.033
hgu2beta7GRIF0.0120.0080.020
hgu2beta7LOCUSID0.0210.0000.021
hgu2beta7MAP0.0730.0000.073
hgu2beta7OMIM0.0220.0000.023
hgu2beta7ORGANISM000
hgu2beta7PATH0.0180.0000.017
hgu2beta7PATH2PROBE0.0020.0000.003
hgu2beta7PMID0.0680.0000.069
hgu2beta7PMID2PROBE0.1820.0080.190
hgu2beta7REFSEQ0.0680.0080.076
hgu2beta7SUMFUNC0.1040.0040.107
hgu2beta7SYMBOL0.0350.0000.035
hgu2beta7UNIGENE0.0330.0000.033