Tyler Smith
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/flowPloidy |
| Branch: RELEASE_3_6 |
| Last Commit: 72a9876 |
| Last Changed Date: 2018-03-08 16:01:18 -0400 (Thu, 08 Mar 2018) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:15:32 -0400 (Thu, 12 Apr 2018).
| Package 487/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| flowPloidy 1.4.2 Tyler Smith
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | [ OK ] | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | OK | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK | |
| Package: flowPloidy |
| Version: 1.4.2 |
| Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings flowPloidy_1.4.2.tar.gz |
| StartedAt: 2018-04-11 23:31:06 -0400 (Wed, 11 Apr 2018) |
| EndedAt: 2018-04-11 23:32:14 -0400 (Wed, 11 Apr 2018) |
| EllapsedTime: 68.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: flowPloidy.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings flowPloidy_1.4.2.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.6-bioc/meat/flowPloidy.Rcheck’ * using R version 3.4.4 (2018-03-15) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘flowPloidy/DESCRIPTION’ ... OK * this is package ‘flowPloidy’ version ‘1.4.2’ * 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 ‘flowPloidy’ 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 installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * 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
flowPloidy.Rcheck/00install.out
* installing *source* package ‘flowPloidy’ ... ** R ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (flowPloidy)
flowPloidy.Rcheck/tests/testthat.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(testthat)
> library(flowPloidy)
>
> test_check("flowPloidy")
FlowHist object '188-15.LMD'
channel: FL3.INT.LIN
2 samples
bins: 256
linearity: variable
debris: SC
6 model components: fA1, fA2, brA, fB1, SC, AG
11 parameters: a1, Ma, Sa, a2, d, BRA, b1, Mb, Sb, SCa, Ap
5 special parameters: xx, SCvals, DBvals, TRvals, QDvals
Model fit
Analysis
========
Ratio Peak A / Peak B: 0.727, SE: 0.00039
| | counts| size| cvs|
|:------|--------:|-------:|-----:|
|Peak A | 1440.229| 99.034| 0.022|
|Peak B | 2827.105| 136.138| 0.020|
RCS: 2.208
FlowHist object '222.LMD'
channel: FL3.INT.LIN
2 samples
bins: 256
linearity: variable
debris: SC
7 model components: fA1, fA2, brA, fB1, fB2, SC, AG
12 parameters: a1, Ma, Sa, a2, d, BRA, b1, Mb, Sb, b2, SCa, Ap
5 special parameters: xx, SCvals, DBvals, TRvals, QDvals
Model fitting not complete
RCS: NA
FlowHist object '240+S.LMD'
channel: FL3.INT.LIN
2 samples
bins: 256
linearity: variable
debris: MC
6 model components: fA1, fA2, brA, fB1, MC, AG
12 parameters: a1, Ma, Sa, a2, d, BRA, b1, Mb, Sb, MCa, k, Ap
5 special parameters: xx, MCvals, DBvals, TRvals, QDvals
Model fit
Analysis
========
Ratio Peak A / Peak B: 0.481, SE: 0.00535
| | counts| size| cvs|
|:------|--------:|-------:|-----:|
|Peak A | 625.097| 77.385| 0.045|
|Peak B | 3201.495| 161.002| 0.076|
RCS: 2.301
══ testthat results ═══════════════════════════════════════════════════════════
OK: 23 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
4.392 0.096 4.487
flowPloidy.Rcheck/flowPloidy-Ex.timings
| name | user | system | elapsed | |
| DebrisModels | 0.000 | 0.000 | 0.001 | |
| FlowHist | 4.408 | 0.024 | 4.786 | |
| FlowStandards | 0.120 | 0.000 | 0.118 | |
| ModelComponent | 0.000 | 0.004 | 0.004 | |
| browseFlowHist | 1.748 | 0.004 | 1.752 | |
| fhAccessors | 0.068 | 0.000 | 0.066 | |
| fhAnalyze | 0.104 | 0.000 | 0.102 | |
| findPeaks | 0.000 | 0.000 | 0.001 | |
| pickInit | 0.208 | 0.004 | 0.213 | |
| plotFH | 0.064 | 0.008 | 0.073 | |
| setBins | 0.140 | 0.000 | 0.136 | |
| tabulateFlowHist | 0.180 | 0.000 | 0.181 | |
| updateFlowHist | 0.156 | 0.004 | 0.160 | |
| viewFlowChannels | 0.024 | 0.004 | 0.025 | |