Tyler Smith
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/flowPloidy |
| Branch: RELEASE_3_7 |
| Last Commit: ead8e20 |
| Last Changed Date: 2018-07-30 12:50:33 -0400 (Mon, 30 Jul 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:43:00 -0400 (Wed, 17 Oct 2018).
| Package 512/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| flowPloidy 1.6.0 Tyler Smith
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: flowPloidy |
| Version: 1.6.0 |
| Command: C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:flowPloidy.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings flowPloidy_1.6.0.tar.gz |
| StartedAt: 2018-10-17 02:02:16 -0400 (Wed, 17 Oct 2018) |
| EndedAt: 2018-10-17 02:04:08 -0400 (Wed, 17 Oct 2018) |
| EllapsedTime: 111.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: flowPloidy.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:flowPloidy.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings flowPloidy_1.6.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.7-bioc/meat/flowPloidy.Rcheck' * using R version 3.5.1 Patched (2018-07-24 r75005) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'flowPloidy/DESCRIPTION' ... OK * this is package 'flowPloidy' version '1.6.0' * 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 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 * loading checks for arch 'i386' ** 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 * loading checks for arch 'x64' ** 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 files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK ** running examples for arch 'x64' ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'testthat.R' OK ** running tests for arch 'x64' ... 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
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/flowPloidy_1.6.0.tar.gz && rm -rf flowPloidy.buildbin-libdir && mkdir flowPloidy.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=flowPloidy.buildbin-libdir flowPloidy_1.6.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL flowPloidy_1.6.0.zip && rm flowPloidy_1.6.0.tar.gz flowPloidy_1.6.0.zip
###
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install for i386
* installing *source* package 'flowPloidy' ...
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'flowPloidy'
finding HTML links ... done
DebrisModels html
FlowHist html
finding level-2 HTML links ... done
FlowStandards html
ModelComponent html
browseFlowHist html
fhAccessors html
fhAnalyze html
fhDoCV html
fhDoCounts html
fhDoNLS html
fhDoRCS html
fhModels html
fhStart html
findPeaks html
flowPloidy html
gauss html
pickInit html
plot.FlowHist html
plotFH html
resetFlowHist html
setBins html
setGate html
tabulateFlowHist html
updateFlowHist html
viewFlowChannels html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'flowPloidy' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'flowPloidy' as flowPloidy_1.6.0.zip
* DONE (flowPloidy)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'flowPloidy' successfully unpacked and MD5 sums checked
In R CMD INSTALL
|
flowPloidy.Rcheck/tests_i386/testthat.Rout
R version 3.5.1 Patched (2018-07-24 r75005) -- "Feather Spray"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-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: 0.48, SE: 0.00326
| | counts| size| cvs|
|:------|--------:|-------:|-----:|
|Peak A | 642.085| 77.174| 0.047|
|Peak B | 3334.162| 160.613| 0.078|
RCS: 2.536
FlowHist object '08.328'
channel: FL2.A
2 samples
bins: 256
linearity: variable
debris: SC
0 model components:
0 parameters:
0 special parameters:
Model fitting not complete
RCS: NA
== testthat results ===========================================================
OK: 26 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
3.59 0.46 4.95
|
flowPloidy.Rcheck/tests_x64/testthat.Rout
R version 3.5.1 Patched (2018-07-24 r75005) -- "Feather Spray"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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: 0.48, SE: 0.00326
| | counts| size| cvs|
|:------|--------:|-------:|-----:|
|Peak A | 642.085| 77.174| 0.047|
|Peak B | 3334.172| 160.613| 0.078|
RCS: 2.536
FlowHist object '08.328'
channel: FL2.A
2 samples
bins: 256
linearity: variable
debris: SC
0 model components:
0 parameters:
0 special parameters:
Model fitting not complete
RCS: NA
== testthat results ===========================================================
OK: 26 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
3.46 0.25 3.71
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flowPloidy.Rcheck/examples_i386/flowPloidy-Ex.timings
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flowPloidy.Rcheck/examples_x64/flowPloidy-Ex.timings
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