BioC 3.5: CHECK report for coseq on malbec2
This page was generated on 2017-08-16 13:18:08 -0400 (Wed, 16 Aug 2017).
coseq 1.0.1 Andrea Rau
Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017) | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/coseq | Last Changed Rev: 129183 / Revision: 131943 | Last Changed Date: 2017-04-26 05:06:31 -0400 (Wed, 26 Apr 2017) |
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | [ OK ] | |  |
tokay2 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | OK | OK |  |
veracruz2 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK |  |
Summary
Package: coseq |
Version: 1.0.1 |
Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings coseq_1.0.1.tar.gz |
StartedAt: 2017-08-15 22:13:50 -0400 (Tue, 15 Aug 2017) |
EndedAt: 2017-08-15 22:17:21 -0400 (Tue, 15 Aug 2017) |
EllapsedTime: 210.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: coseq.Rcheck |
Warnings: 0 |
Command output
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### Running command:
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### /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings coseq_1.0.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.5-bioc/meat/coseq.Rcheck’
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘coseq/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘coseq’ version ‘1.0.1’
* 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 ‘coseq’ 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 loading without being on the library search path ... 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
compareARI 8.024 0.088 8.119
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
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: OK
coseq.Rcheck/00install.out:
* installing *source* package ‘coseq’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (coseq)
coseq.Rcheck/coseq-Ex.timings:
name | user | system | elapsed
|
NormMixClus | 1.256 | 0.072 | 1.360 |
|
NormMixClusK | 0.588 | 0.000 | 0.587 |
|
NormMixParam | 0.128 | 0.000 | 0.127 |
|
clusterEntropy | 0.004 | 0.000 | 0.001 |
|
clusterInertia | 0.580 | 0.004 | 0.587 |
|
compareARI | 8.024 | 0.088 | 8.119 |
|
compareICL | 3.936 | 0.008 | 3.945 |
|
coseq-package | 3.376 | 0.004 | 3.383 |
|
coseq | 3.564 | 0.000 | 3.567 |
|
coseqHelpers | 4.424 | 0.000 | 4.426 |
|
coseqRun | 1.132 | 0.000 | 1.133 |
|
kmeansProbaPost | 0.032 | 0.000 | 0.033 |
|
matchContTable | 0.004 | 0.000 | 0.004 |
|
plot | 3.608 | 0.012 | 3.622 |
|
summary | 3.584 | 0.004 | 3.589 |
|
transformRNAseq | 0.008 | 0.000 | 0.008 |
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