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CHECK report for PepsNMR on malbec2

This page was generated on 2019-04-09 11:52:19 -0400 (Tue, 09 Apr 2019).

Package 1170/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PepsNMR 1.1.3
Manon Martin
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/PepsNMR
Branch: master
Last Commit: 8584e60
Last Changed Date: 2019-03-11 09:31:19 -0400 (Mon, 11 Mar 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK 

Summary

Package: PepsNMR
Version: 1.1.3
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:PepsNMR.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings PepsNMR_1.1.3.tar.gz
StartedAt: 2019-04-09 02:38:53 -0400 (Tue, 09 Apr 2019)
EndedAt: 2019-04-09 02:50:06 -0400 (Tue, 09 Apr 2019)
EllapsedTime: 673.4 seconds
RetCode: 0
Status:  OK 
CheckDir: PepsNMR.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:PepsNMR.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings PepsNMR_1.1.3.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/PepsNMR.Rcheck’
* using R Under development (unstable) (2019-03-18 r76245)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PepsNMR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘PepsNMR’ version ‘1.1.3’
* package encoding: UTF-8
* 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 ‘PepsNMR’ 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                      user system elapsed
PreprocessingChain 300.827  0.584 301.636
PEPSNMR-package    291.009  1.623 293.120
Warping             13.035  0.112  13.151
* 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

PepsNMR.Rcheck/00install.out

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL PepsNMR
###
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘PepsNMR’ ...
** 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 (PepsNMR)

Tests output


Example timings

PepsNMR.Rcheck/PepsNMR-Ex.timings

nameusersystemelapsed
Apodization0.7540.0521.061
BaselineCorrection0.6050.0120.616
Bucketing0.1080.0030.110
Draw1.8660.0041.890
DrawPCA0.870.000.87
DrawSignal0.6740.0000.674
FirstOrderPhaseCorrection0.0250.0120.038
FourierTransform0.0140.0120.026
GroupDelayCorrection0.0420.0000.042
InternalReferencing0.0170.0080.024
NegativeValuesZeroing0.0190.0000.019
Normalization0.0080.0000.008
PEPSNMR-package291.009 1.623293.120
PreprocessingChain300.827 0.584301.636
ReadFids0.5590.0440.602
RegionRemoval0.0130.0000.013
SolventSuppression0.1380.0040.141
Warping13.035 0.11213.151
WindowSelection0.0410.0000.041
ZeroFilling0.1230.0000.122
ZeroOrderPhaseCorrection0.0960.0000.096
ZoneAggregation0.3740.0121.250