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This page was generated on 2022-04-13 12:05:32 -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 nebbiolo2


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: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:LowMACA.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings LowMACA_1.24.0.tar.gz
StartedAt: 2022-04-12 08:00:46 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 08:07:05 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 378.9 seconds
RetCode: 0
Status:   OK  
CheckDir: LowMACA.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:LowMACA.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings LowMACA_1.24.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/LowMACA.Rcheck’
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-pc-linux-gnu (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   121.753  2.651 124.329
lfmSingleSequence  66.403  1.924  68.326
setup              11.627  0.368  30.748
LowMACA-class       8.836  0.417  18.367
LowMACA-package     6.481  0.187  11.461
alignSequences      4.965  0.137  14.736
* 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:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL LowMACA
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/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
BLOSUM620.0080.0000.008
LowMACA-class 8.836 0.41718.367
LowMACA-package 6.481 0.18711.461
LowMACA_AML0.0220.0000.022
alignSequences 4.965 0.13714.736
allPfamAnalysis121.753 2.651124.329
bpAll0.7110.0080.719
entropy0.7410.0080.750
getMutations1.6470.0393.357
lfm1.3830.0041.388
lfmSingleSequence66.403 1.92468.326
lmAlignment0.040.000.04
lmEntropy0.6880.0000.687
lmMutations0.0330.0040.037
lmObj0.0790.0040.084
lmParams0.5340.0060.541
lmPlot2.2270.0042.231
lmPlotSingleSequence2.7800.0612.842
mapMutations0.4710.0080.479
newLowMACA2.7170.0602.777
nullProfile0.7760.0080.784
parallelize0.4880.0120.500
protter0.7890.0282.952
setup11.627 0.36830.748
showTumorType0.0560.0030.097