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This page was generated on 2022-04-13 12:08:14 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
tokay2Windows Server 2012 R2 Standardx644.1.3 (2022-03-10) -- "One Push-Up" 4077
machv2macOS 10.14.6 Mojavex86_644.1.3 (2022-03-10) -- "One Push-Up" 4137
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

CHECK results for LowMACA on machv2


To the developers/maintainers of the LowMACA package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/LowMACA.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 1013/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
LowMACA 1.24.0  (landing page)
Stefano de Pretis , Giorgio Melloni
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/LowMACA
git_branch: RELEASE_3_14
git_last_commit: b991ace
git_last_commit_date: 2021-10-26 12:19:33 -0400 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: LowMACA
Version: 1.24.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:LowMACA.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings LowMACA_1.24.0.tar.gz
StartedAt: 2022-04-12 14:51:33 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 15:01:47 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 613.9 seconds
RetCode: 0
Status:   OK  
CheckDir: LowMACA.Rcheck
Warnings: 0

Command output

##############################################################################
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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:LowMACA.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings LowMACA_1.24.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/LowMACA.Rcheck’
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘LowMACA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘LowMACA’ version ‘1.24.0’
* 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 ‘LowMACA’ 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                     user system elapsed
allPfamAnalysis   193.504  3.056 197.205
lfmSingleSequence 103.160  1.515 104.957
setup              15.215  2.174  50.144
LowMACA-class      13.608  0.321  25.264
LowMACA-package    10.424  0.281  17.291
alignSequences      7.239  2.131  16.387
getMutations        2.918  0.043   5.869
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

LowMACA.Rcheck/00install.out

##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL LowMACA
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’
* installing *source* package ‘LowMACA’ ...
** using staged installation
** R
** data
** 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
Checking if clustalo is in the PATH...
Checking clustalo Version...
Checking perl installation...
Checking perl modules XML::Simple and LWP...
** testing if installed package can be loaded from final location
Checking if clustalo is in the PATH...
Checking clustalo Version...
Checking perl installation...
Checking perl modules XML::Simple and LWP...
** testing if installed package keeps a record of temporary installation path
* DONE (LowMACA)

Tests output


Example timings

LowMACA.Rcheck/LowMACA-Ex.timings

nameusersystemelapsed
BLOSUM620.0140.0030.017
LowMACA-class13.608 0.32125.264
LowMACA-package10.424 0.28117.291
LowMACA_AML0.0290.0030.032
alignSequences 7.239 2.13116.387
allPfamAnalysis193.504 3.056197.205
bpAll1.5110.0251.538
entropy1.4580.0171.476
getMutations2.9180.0435.869
lfm2.5270.0292.561
lfmSingleSequence103.160 1.515104.957
lmAlignment0.0500.0060.057
lmEntropy1.5010.0321.538
lmMutations0.0550.0070.061
lmObj0.1370.0150.153
lmParams0.7410.0310.787
lmPlot4.7170.0504.776
lmPlotSingleSequence4.7730.0574.845
mapMutations0.7180.0060.725
newLowMACA3.7940.0403.837
nullProfile1.5430.0191.563
parallelize0.7460.0060.754
protter1.3490.0183.274
setup15.215 2.17450.144
showTumorType0.0850.0110.148