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CHECK report for PROcess on malbec1

This page was generated on 2019-04-16 11:47:54 -0400 (Tue, 16 Apr 2019).

Package 1192/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PROcess 1.58.1
Xiaochun Li
Snapshot Date: 2019-04-15 17:01:12 -0400 (Mon, 15 Apr 2019)
URL: https://git.bioconductor.org/packages/PROcess
Branch: RELEASE_3_8
Last Commit: 1cbdcd5
Last Changed Date: 2019-01-04 13:45:18 -0400 (Fri, 04 Jan 2019)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: PROcess
Version: 1.58.1
Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:PROcess.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings PROcess_1.58.1.tar.gz
StartedAt: 2019-04-16 02:12:24 -0400 (Tue, 16 Apr 2019)
EndedAt: 2019-04-16 02:13:12 -0400 (Tue, 16 Apr 2019)
EllapsedTime: 47.7 seconds
RetCode: 0
Status:  OK 
CheckDir: PROcess.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:PROcess.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings PROcess_1.58.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.8-bioc/meat/PROcess.Rcheck’
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PROcess/DESCRIPTION’ ... OK
* this is package ‘PROcess’ version ‘1.58.1’
* 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 ‘PROcess’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  ‘Icens’
A package should be listed in only one of these fields.
* 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
gelmap: warning in axis(1, at = at.mz, lab = at.mz, las = 2, lty = 0,
  cex.axis = 0.8): partial argument match of 'lab' to 'labels'
gelmap: warning in axis(2, at = at.col, lab = sampLab[at.col], las = 2,
  lty = 0, cex.axis = cexCol): partial argument match of 'lab' to
  'labels'
* 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-3.8-bioc/meat/PROcess.Rcheck/00check.log’
for details.



Installation output

PROcess.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL PROcess
###
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* installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’
* installing *source* package ‘PROcess’ ...
** 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
* DONE (PROcess)

Tests output


Example timings

PROcess.Rcheck/PROcess-Ex.timings

nameusersystemelapsed
aveSpec0.3160.0160.333
bslnoff0.5120.0040.519
getPeaks3.1080.0083.119
intg0.0000.0000.001
is.multiple0.0040.0000.002
isPeak1.5400.0201.562
peaks0.0440.0000.041
pk2bmkr2.8960.0042.903
quality4.5280.0444.575
renorm0.7640.0000.763
rmBaseline0.5400.0000.541
specZoom1.4240.0201.442