Back to Multiple platform build/check report for BioC 3.15
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This page was generated on 2022-10-19 13:19:57 -0400 (Wed, 19 Oct 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.5 LTS)x86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4386
palomino3Windows Server 2022 Datacenterx644.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" 4138
merida1macOS 10.14.6 Mojavex86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4205
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 agilp on nebbiolo1


To the developers/maintainers of the agilp package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/agilp.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 35/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
agilp 3.28.0  (landing page)
Benny Chain
Snapshot Date: 2022-10-18 13:55:19 -0400 (Tue, 18 Oct 2022)
git_url: https://git.bioconductor.org/packages/agilp
git_branch: RELEASE_3_15
git_last_commit: 2c6dfcc
git_last_commit_date: 2022-04-26 11:12:15 -0400 (Tue, 26 Apr 2022)
nebbiolo1Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: agilp
Version: 3.28.0
Command: /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:agilp.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings agilp_3.28.0.tar.gz
StartedAt: 2022-10-18 18:30:58 -0400 (Tue, 18 Oct 2022)
EndedAt: 2022-10-18 18:31:13 -0400 (Tue, 18 Oct 2022)
EllapsedTime: 14.7 seconds
RetCode: 0
Status:   OK  
CheckDir: agilp.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:agilp.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings agilp_3.28.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.15-bioc/meat/agilp.Rcheck’
* using R version 4.2.1 (2022-06-23)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘agilp/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘agilp’ version ‘3.28.0’
* 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 ‘agilp’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ 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 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 ... NOTE
AALoess: no visible global function definition for ‘read.table’
AALoess: no visible global function definition for ‘loess’
AALoess: no visible global function definition for ‘predict’
AALoess: no visible global function definition for ‘write.table’
AALoess: no visible global function definition for ‘hist’
AAProcess: no visible global function definition for ‘read.table’
AAProcess: no visible global function definition for ‘write.table’
Baseline: no visible global function definition for ‘read.table’
Baseline: no visible global function definition for ‘write.table’
Equaliser: no visible global function definition for ‘read.table’
Equaliser: no visible global function definition for ‘write.table’
IDswop: no visible global function definition for ‘read.table’
IDswop: no visible binding for global variable ‘sd’
IDswop: no visible global function definition for ‘write.table’
Loader: no visible global function definition for ‘read.table’
Loader: no visible global function definition for ‘write.table’
filenamex: no visible global function definition for ‘write.table’
Undefined global functions or variables:
  hist loess predict read.table sd write.table
Consider adding
  importFrom("graphics", "hist")
  importFrom("stats", "loess", "predict", "sd")
  importFrom("utils", "read.table", "write.table")
to your NAMESPACE file.
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
* 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: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.15-bioc/meat/agilp.Rcheck/00check.log’
for details.



Installation output

agilp.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD INSTALL agilp
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.15-bioc/R/library’
* installing *source* package ‘agilp’ ...
** 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 (agilp)

Tests output


Example timings

agilp.Rcheck/agilp-Ex.timings

nameusersystemelapsed
AALoess0.0640.0040.069
AAProcess0.0410.0080.049
Baseline0.0300.0040.034
Equaliser0.040.000.04
IDswop0.2510.0050.258
Loader0.0510.0430.096
filenamex0.0000.0030.003