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CHECK report for daMA on malbec2

This page was generated on 2020-10-17 11:54:38 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE daMA PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 418/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
daMA 1.60.0
Jobst Landgrebe
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/daMA
Branch: RELEASE_3_11
Last Commit: 3c37b6f
Last Changed Date: 2020-04-27 14:08:39 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 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
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: daMA
Version: 1.60.0
Command: /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:daMA.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings daMA_1.60.0.tar.gz
StartedAt: 2020-10-17 00:27:04 -0400 (Sat, 17 Oct 2020)
EndedAt: 2020-10-17 00:27:27 -0400 (Sat, 17 Oct 2020)
EllapsedTime: 23.3 seconds
RetCode: 0
Status:  OK 
CheckDir: daMA.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:daMA.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings daMA_1.60.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.11-bioc/meat/daMA.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘daMA/DESCRIPTION’ ... OK
* this is package ‘daMA’ version ‘1.60.0’
* 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 ‘daMA’ can be installed ... OK
* checking installed package size ... OK
* checking package 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 ... OK
* checking Rd files ... NOTE
prepare_Rd: analyseMA.Rd:70: Dropping empty section \note
prepare_Rd: analyseMA.Rd:72: Dropping empty section \seealso
prepare_Rd: cmat.Rd:13-14: Dropping empty section \format
prepare_Rd: cmat.Rd:15-16: Dropping empty section \details
prepare_Rd: cmat.Rd:17-19: Dropping empty section \source
prepare_Rd: cmatB.AB.Rd:13-14: Dropping empty section \format
prepare_Rd: cmatB.AB.Rd:15-16: Dropping empty section \details
prepare_Rd: cmatB.AB.Rd:17-18: Dropping empty section \source
prepare_Rd: core.Rd:42: Dropping empty section \keyword
prepare_Rd: core.Rd:29-30: Dropping empty section \details
prepare_Rd: core.Rd:31-32: Dropping empty section \value
prepare_Rd: core.Rd:38: Dropping empty section \note
prepare_Rd: core.Rd:40: Dropping empty section \seealso
prepare_Rd: core.Rd:41: Dropping empty section \examples
prepare_Rd: data.3x2.Rd:15-16: Dropping empty section \details
prepare_Rd: data.3x2.Rd:21-22: Dropping empty section \references
prepare_Rd: designMA.Rd:66: Dropping empty section \note
prepare_Rd: designMA.Rd:68: Dropping empty section \seealso
prepare_Rd: id.3x2.Rd:14-15: Dropping empty section \details
prepare_Rd: id.3x2.Rd:16-17: Dropping empty section \source
prepare_Rd: id.3x2.Rd:18-19: Dropping empty section \references
* 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 examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.11-bioc/meat/daMA.Rcheck/00check.log’
for details.



Installation output

daMA.Rcheck/00install.out

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### Running command:
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###   /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL daMA
###
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* installing to library ‘/home/biocbuild/bbs-3.11-bioc/R/library’
* installing *source* package ‘daMA’ ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (daMA)

Tests output


Example timings

daMA.Rcheck/daMA-Ex.timings

nameusersystemelapsed
analyseMA000
cinfo0.020.000.02
cinfoB.AB0.0010.0000.001
cmat0.0010.0000.001
cmatB.AB0.0010.0000.001
data.3x20.0680.0040.072
designMA000
designs.composite0.0020.0000.002
id.3x20.0030.0000.003