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This page was generated on 2024-12-10 15:42 -0500 (Tue, 10 Dec 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4739
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 271/431HostnameOS / ArchINSTALLBUILDCHECK
NCIgraphData 1.42.0  (landing page)
Laurent Jacob
Snapshot Date: 2024-12-10 07:30 -0500 (Tue, 10 Dec 2024)
git_url: https://git.bioconductor.org/packages/NCIgraphData
git_branch: RELEASE_3_20
git_last_commit: 3210b7c
git_last_commit_date: 2024-10-29 09:28:28 -0500 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published


CHECK results for NCIgraphData on nebbiolo2

To the developers/maintainers of the NCIgraphData 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: NCIgraphData
Version: 1.42.0
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:NCIgraphData.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings NCIgraphData_1.42.0.tar.gz
StartedAt: 2024-12-10 13:08:06 -0500 (Tue, 10 Dec 2024)
EndedAt: 2024-12-10 13:12:52 -0500 (Tue, 10 Dec 2024)
EllapsedTime: 285.6 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: NCIgraphData.Rcheck
Warnings: 2

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:NCIgraphData.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings NCIgraphData_1.42.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.20-data-experiment/meat/NCIgraphData.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
    GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘NCIgraphData/DESCRIPTION’ ... OK
* this is package ‘NCIgraphData’ version ‘1.42.0’
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 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 ‘NCIgraphData’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.4Mb
  sub-directories of 1Mb or more:
    data   5.3Mb
* 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 ... 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 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 LazyData ... WARNING
  LazyData DB of 5.3 MB without LazyDataCompression set
  See §1.1.6 of 'Writing R Extensions'
* 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
  NCI-cyList.RData         4.3Mb    2.0Mb       xz
  reactome-cyList.RData    1.1Mb    558Kb       xz
* checking examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 WARNINGs, 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.20-data-experiment/meat/NCIgraphData.Rcheck/00check.log’
for details.


Installation output

NCIgraphData.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL NCIgraphData
###
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* installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’
* installing *source* package ‘NCIgraphData’ ...
** using staged installation
** data
*** moving datasets to lazyload DB
** 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 (NCIgraphData)

Tests output


Example timings

NCIgraphData.Rcheck/NCIgraphData-Ex.timings

nameusersystemelapsed
NCI.cyList1.5100.1981.716
reactome.cyList0.2820.0340.317