Harmen Bussemaker
| Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019) |
| URL: https://git.bioconductor.org/packages/SELEX |
| Branch: master |
| Last Commit: fd16eaa |
| Last Changed Date: 2018-10-30 11:54:34 -0400 (Tue, 30 Oct 2018) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-04-09 13:31:05 -0400 (Tue, 09 Apr 2019).
| Package 1454/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| SELEX 1.15.0 Harmen Bussemaker
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK |
| Package: SELEX |
| Version: 1.15.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:SELEX.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings SELEX_1.15.0.tar.gz |
| StartedAt: 2019-04-09 03:38:30 -0400 (Tue, 09 Apr 2019) |
| EndedAt: 2019-04-09 03:41:02 -0400 (Tue, 09 Apr 2019) |
| EllapsedTime: 151.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SELEX.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:SELEX.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings SELEX_1.15.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/SELEX.Rcheck’
* using R Under development (unstable) (2018-11-27 r75683)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SELEX/DESCRIPTION’ ... OK
* this is package ‘SELEX’ version ‘1.15.0’
* 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 ‘SELEX’ 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
selex.config: no visible global function definition for ‘read.table’
selex.config: no visible global function definition for ‘write.table’
selex.counts: no visible global function definition for ‘flush.console’
selex.infogain: no visible global function definition for
‘flush.console’
selex.kmax: no visible global function definition for ‘flush.console’
selex.loadCountTable: no visible global function definition for
‘flush.console’
selex.mm: no visible global function definition for ‘flush.console’
selex.revcomp: no visible global function definition for
‘complete.cases’
Undefined global functions or variables:
complete.cases flush.console read.table write.table
Consider adding
importFrom("stats", "complete.cases")
importFrom("utils", "flush.console", "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 line endings in Makefiles ... OK
* checking for GNU extensions in Makefiles ... OK
* checking include directives in Makefiles ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
SELEX 38.193 6.026 20.007
selex.seqfilter 12.924 1.339 5.429
* 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
‘/Users/biocbuild/bbs-3.9-bioc/meat/SELEX.Rcheck/00check.log’
for details.
SELEX.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL SELEX ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘SELEX’ ... ** 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 (SELEX)
SELEX.Rcheck/SELEX-Ex.timings
| name | user | system | elapsed | |
| SELEX | 38.193 | 6.026 | 20.007 | |
| selex.affinities | 1.389 | 0.403 | 1.427 | |
| selex.config | 0.432 | 0.106 | 0.299 | |
| selex.countSummary | 1.685 | 0.447 | 1.523 | |
| selex.counts | 2.224 | 0.490 | 1.760 | |
| selex.defineSample | 0.396 | 0.098 | 0.295 | |
| selex.exampledata | 0.265 | 0.109 | 0.306 | |
| selex.fastqPSFM | 1.015 | 0.138 | 0.751 | |
| selex.getAttributes | 0.588 | 0.155 | 0.459 | |
| selex.getRound0 | 0.356 | 0.129 | 0.463 | |
| selex.getSeqfilter | 0.794 | 0.109 | 0.305 | |
| selex.infogain | 2.897 | 0.908 | 2.917 | |
| selex.infogainSummary | 1.595 | 0.364 | 1.193 | |
| selex.jvmStatus | 0.524 | 0.112 | 0.316 | |
| selex.kmax | 1.929 | 0.840 | 2.462 | |
| selex.kmerPSFM | 0.916 | 0.241 | 0.800 | |
| selex.loadAnnotation | 0.788 | 0.141 | 0.455 | |
| selex.mm | 1.492 | 0.331 | 1.100 | |
| selex.mmProb | 0.931 | 0.346 | 1.150 | |
| selex.mmSummary | 0.909 | 0.353 | 1.162 | |
| selex.revcomp | 1.135 | 0.378 | 1.377 | |
| selex.run | 3.490 | 0.855 | 2.748 | |
| selex.sample | 0.462 | 0.151 | 0.473 | |
| selex.samplePSFM | 1.085 | 0.154 | 0.817 | |
| selex.sampleSummary | 0.474 | 0.140 | 0.458 | |
| selex.saveAnnotation | 0.232 | 0.124 | 0.358 | |
| selex.seqfilter | 12.924 | 1.339 | 5.429 | |
| selex.setwd | 0.360 | 0.092 | 0.256 | |
| selex.split | 0.853 | 0.280 | 0.935 | |
| selex.summary | 2.056 | 0.787 | 2.650 | |