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This page was generated on 2023-02-03 02:36:23 -0000 (Fri, 03 Feb 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng1Linux (Ubuntu 22.04.1 LTS)aarch64R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" 4039
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CHECK results for SELEX on kunpeng1


To the developers/maintainers of the SELEX package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SELEX.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1819/2164HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SELEX 1.31.0  (landing page)
Harmen J. Bussemaker
Snapshot Date: 2023-02-01 03:13:00 -0000 (Wed, 01 Feb 2023)
git_url: https://git.bioconductor.org/packages/SELEX
git_branch: master
git_last_commit: 5c5c6eb
git_last_commit_date: 2022-11-01 15:11:08 -0000 (Tue, 01 Nov 2022)
kunpeng1Linux (Ubuntu 22.04.1 LTS) / aarch64  OK    OK    OK  

Summary

Package: SELEX
Version: 1.31.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:SELEX.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings SELEX_1.31.0.tar.gz
StartedAt: 2023-02-02 19:56:24 -0000 (Thu, 02 Feb 2023)
EndedAt: 2023-02-02 19:59:20 -0000 (Thu, 02 Feb 2023)
EllapsedTime: 176.4 seconds
RetCode: 0
Status:   OK  
CheckDir: SELEX.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:SELEX.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings SELEX_1.31.0.tar.gz
###
##############################################################################
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* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/SELEX.Rcheck’
* using R Under development (unstable) (2023-01-14 r83615)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.1 LTS
* using session charset: UTF-8
* checking for file ‘SELEX/DESCRIPTION’ ... OK
* this is package ‘SELEX’ version ‘1.31.0’
* 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 ‘SELEX’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ 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 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 ... 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 line endings in Makefiles ... OK
* checking for GNU extensions in Makefiles ... OK
* checking include directives in Makefiles ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                  user system elapsed
SELEX           18.638  1.666  13.185
selex.seqfilter  8.255  0.214   3.998
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘SELEX.Rnw’... OK
 OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

SELEX.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL SELEX
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/library’
* installing *source* package ‘SELEX’ ...
** using staged installation
** R
** inst
** 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 (SELEX)

Tests output


Example timings

SELEX.Rcheck/SELEX-Ex.timings

nameusersystemelapsed
SELEX18.638 1.66613.185
selex.affinities1.1050.0140.554
selex.config0.1070.0000.066
selex.countSummary0.9750.0150.401
selex.counts1.8000.0030.883
selex.defineSample0.1470.0100.054
selex.exampledata0.1040.0040.036
selex.fastqPSFM0.6500.0190.339
selex.getAttributes0.1200.0080.119
selex.getRound00.3330.0090.240
selex.getSeqfilter0.0830.0000.062
selex.infogain1.2420.0270.724
selex.infogainSummary0.5400.0140.332
selex.jvmStatus0.0830.0040.042
selex.kmax0.8210.2360.822
selex.kmerPSFM0.3810.0490.307
selex.loadAnnotation0.3660.0050.221
selex.mm0.4130.0190.253
selex.mmProb0.4580.0080.243
selex.mmSummary0.5310.0200.275
selex.revcomp0.6140.0200.509
selex.run1.5250.0190.799
selex.sample0.2110.0040.115
selex.samplePSFM0.4000.0080.190
selex.sampleSummary0.1620.0030.074
selex.saveAnnotation0.0880.0040.057
selex.seqfilter8.2550.2143.998
selex.setwd0.0630.0000.031
selex.split0.6040.0080.248
selex.summary1.1270.0190.701