Back to Build/check report for BioC 3.19 experimental data
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This page was generated on 2024-03-26 14:51:26 -0400 (Tue, 26 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_64R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" 4698
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 111/425HostnameOS / ArchINSTALLBUILDCHECK
ELMER.data 2.27.0  (landing page)
Tiago Chedraoui Silva
Snapshot Date: 2024-03-26 07:30:03 -0400 (Tue, 26 Mar 2024)
git_url: https://git.bioconductor.org/packages/ELMER.data
git_branch: devel
git_last_commit: b269687
git_last_commit_date: 2023-10-24 09:10:40 -0400 (Tue, 24 Oct 2023)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published

CHECK results for ELMER.data on nebbiolo1


To the developers/maintainers of the ELMER.data 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: ELMER.data
Version: 2.27.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:ELMER.data.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings ELMER.data_2.27.0.tar.gz
StartedAt: 2024-03-26 11:33:10 -0400 (Tue, 26 Mar 2024)
EndedAt: 2024-03-26 11:38:46 -0400 (Tue, 26 Mar 2024)
EllapsedTime: 336.1 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: ELMER.data.Rcheck
Warnings: 1

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:ELMER.data.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings ELMER.data_2.27.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-data-experiment/meat/ELMER.data.Rcheck’
* using R Under development (unstable) (2024-03-18 r86148)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘ELMER.data/DESCRIPTION’ ... OK
* this is package ‘ELMER.data’ version ‘2.27.0’
* 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 ... NOTE
Found the following hidden files and directories:
  .travis.yml
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘ELMER.data’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 293.4Mb
  sub-directories of 1Mb or more:
    data  293.2Mb
* checking package directory ... OK
* checking ‘build’ 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 ... OK
* checking code 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 ... 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... WARNING
  Error loading dataset 'data':
   Error in .requirePackage(package) : 
    unable to find required package 'MultiAssayExperiment'
  
  Error loading dataset 'mae.promoter':
   Error in .requirePackage(package) : 
    unable to find required package 'MultiAssayExperiment'
  
  Note: found 36 marked UTF-8 strings
  The dataset(s) may use package(s) not declared in Depends/Imports.
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.19-data-experiment/meat/ELMER.data.Rcheck/00check.log’
for details.


Installation output

ELMER.data.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL ELMER.data
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘ELMER.data’ ...
** using staged installation
** R
** data
** 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 (ELMER.data)

Tests output


Example timings

ELMER.data.Rcheck/ELMER.data-Ex.timings

nameusersystemelapsed
ELMER.data0.0010.0000.001
EPIC.hg19.manifest000
EPIC.hg38.manifest000
Probes.motif.hg19.450K0.0010.0000.000
Probes.motif.hg19.EPIC000
Probes.motif.hg38.450K0.0000.0000.001
Probes.motif.hg38.EPIC000
data000
hm450.hg19.manifest000
hm450.hg38.manifest000
mae.promoter0.0000.0000.001