Diana LOW
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/CONFESS |
| Branch: RELEASE_3_9 |
| Last Commit: c2212da |
| Last Changed Date: 2019-05-02 11:54:01 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:57:42 -0400 (Wed, 16 Oct 2019).
| Package 333/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| CONFESS 1.12.0 Diana LOW
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ WARNINGS ] | OK | |
| Package: CONFESS |
| Version: 1.12.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:CONFESS.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings CONFESS_1.12.0.tar.gz |
| StartedAt: 2019-10-16 01:44:21 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 01:52:31 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 489.6 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: CONFESS.Rcheck |
| Warnings: 1 |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:CONFESS.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings CONFESS_1.12.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/CONFESS.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘CONFESS/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CONFESS’ version ‘1.12.0’
* 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 ‘CONFESS’ can be installed ... WARNING
Found the following significant warnings:
Warning: 'rgl_init' failed, running with rgl.useNULL = TRUE
Warning: replacing previous import ‘stats::BIC’ by ‘flowMerge::BIC’ when loading ‘CONFESS’
See ‘/Users/biocbuild/bbs-3.9-bioc/meat/CONFESS.Rcheck/00install.out’ for details.
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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
Fluo_CV_prep 57.551 18.460 75.256
Fluo_adjustment 35.648 9.340 44.636
Fluo_modeling 12.034 3.127 15.117
Fluo_inspection 5.141 6.122 11.008
simcells 5.184 0.876 6.050
* 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: 1 WARNING
See
‘/Users/biocbuild/bbs-3.9-bioc/meat/CONFESS.Rcheck/00check.log’
for details.
CONFESS.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL CONFESS ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘CONFESS’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading Warning in rgl.init(initValue, onlyNULL) : RGL: GLX extension missing on server Warning: 'rgl_init' failed, running with rgl.useNULL = TRUE Warning: replacing previous import ‘stats::BIC’ by ‘flowMerge::BIC’ when loading ‘CONFESS’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location Warning in rgl.init(initValue, onlyNULL) : RGL: GLX extension missing on server Warning: 'rgl_init' failed, running with rgl.useNULL = TRUE Warning: replacing previous import ‘stats::BIC’ by ‘flowMerge::BIC’ when loading ‘CONFESS’ ** testing if installed package can be loaded from final location Warning in rgl.init(initValue, onlyNULL) : RGL: GLX extension missing on server Warning: 'rgl_init' failed, running with rgl.useNULL = TRUE Warning: replacing previous import ‘stats::BIC’ by ‘flowMerge::BIC’ when loading ‘CONFESS’ ** testing if installed package keeps a record of temporary installation path * DONE (CONFESS)
CONFESS.Rcheck/CONFESS-Ex.timings
| name | user | system | elapsed | |
| FluoSelection_byRun | 0.025 | 0.008 | 0.034 | |
| Fluo_CV_modeling | 0.000 | 0.001 | 0.001 | |
| Fluo_CV_prep | 57.551 | 18.460 | 75.256 | |
| Fluo_adjustment | 35.648 | 9.340 | 44.636 | |
| Fluo_inspection | 5.141 | 6.122 | 11.008 | |
| Fluo_modeling | 12.034 | 3.127 | 15.117 | |
| Fluo_ordering | 1.684 | 0.425 | 2.138 | |
| LocationMatrix | 0.007 | 0.003 | 0.010 | |
| cluster2outlier | 0.003 | 0.000 | 0.003 | |
| createFluo | 0.016 | 0.002 | 0.018 | |
| defineLocClusters | 0.084 | 0.030 | 0.120 | |
| files | 0.004 | 0.002 | 0.006 | |
| getFluo | 0.052 | 0.031 | 0.083 | |
| getFluo_byRun | 0.104 | 0.069 | 0.170 | |
| pathEstimator | 0.002 | 0.001 | 0.002 | |
| readFiles | 0.023 | 0.004 | 0.026 | |
| simcells | 5.184 | 0.876 | 6.050 | |
| spotEstimator | 0.001 | 0.000 | 0.001 | |