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This page was generated on 2024-07-02 14:51 -0400 (Tue, 02 Jul 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" 4693
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 204/425HostnameOS / ArchINSTALLBUILDCHECK
KEGGdzPathwaysGEO 1.43.0  (landing page)
Gaurav Bhatti
Snapshot Date: 2024-07-02 07:30 -0400 (Tue, 02 Jul 2024)
git_url: https://git.bioconductor.org/packages/KEGGdzPathwaysGEO
git_branch: devel
git_last_commit: 726bca5
git_last_commit_date: 2024-04-30 10:32:09 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published


CHECK results for KEGGdzPathwaysGEO on nebbiolo2

To the developers/maintainers of the KEGGdzPathwaysGEO 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: KEGGdzPathwaysGEO
Version: 1.43.0
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:KEGGdzPathwaysGEO.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings KEGGdzPathwaysGEO_1.43.0.tar.gz
StartedAt: 2024-07-02 11:34:48 -0400 (Tue, 02 Jul 2024)
EndedAt: 2024-07-02 11:39:36 -0400 (Tue, 02 Jul 2024)
EllapsedTime: 288.2 seconds
RetCode: 0
Status:   OK  
CheckDir: KEGGdzPathwaysGEO.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:KEGGdzPathwaysGEO.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings KEGGdzPathwaysGEO_1.43.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.20-data-experiment/meat/KEGGdzPathwaysGEO.Rcheck’
* using R version 4.4.0 RC (2024-04-16 r86468)
* 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 ‘KEGGdzPathwaysGEO/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘KEGGdzPathwaysGEO’ version ‘1.43.0’
* 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 ‘KEGGdzPathwaysGEO’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 300.8Mb
  sub-directories of 1Mb or more:
    data  300.6Mb
* 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 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 ... NOTE
Namespaces in Imports field not imported from:
  ‘Biobase’ ‘BiocGenerics’
  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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
* checking PDF version of manual ... OK
* DONE

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


Installation output

KEGGdzPathwaysGEO.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL KEGGdzPathwaysGEO
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’
* installing *source* package ‘KEGGdzPathwaysGEO’ ...
** using staged installation
** R
** data
** 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 (KEGGdzPathwaysGEO)

Tests output


Example timings

KEGGdzPathwaysGEO.Rcheck/KEGGdzPathwaysGEO-Ex.timings

nameusersystemelapsed
GSE12970.0480.0080.056
GSE147620.1180.0040.122
GSE154710.2740.0160.290
GSE165150.1470.0160.163
GSE188420.3520.0040.356
GSE191880.5880.0520.639
GSE197280.1170.0000.117
GSE201530.0900.0080.098
GSE202910.0680.0000.069
GSE213540.1110.0000.111
GSE34670.1080.0000.108
GSE35850.0380.0000.038
GSE36780.0930.0000.093
GSE41070.1170.0040.121
GSE5281_EC0.1160.0000.117
GSE5281_HIP0.1280.0000.129
GSE5281_VCX0.1470.0030.151
GSE6956AA0.0350.0010.035
GSE6956C0.0830.0040.086
GSE7810.0420.0000.041
GSE86710.2450.0160.261
GSE87620.1070.0150.122
GSE93480.3200.0040.324
GSE94760.0940.0170.110
KEGGdzPathwaysGEO-package0.3010.0110.313