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This page was generated on 2022-01-21 13:06:11 -0500 (Fri, 21 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4079
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4140
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for cyanoFilter on tokay2


To the developers/maintainers of the cyanoFilter package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/cyanoFilter.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 434/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cyanoFilter 1.2.0  (landing page)
Oluwafemi Olusoji
Snapshot Date: 2022-01-20 01:55:04 -0500 (Thu, 20 Jan 2022)
git_url: https://git.bioconductor.org/packages/cyanoFilter
git_branch: RELEASE_3_14
git_last_commit: f126547
git_last_commit_date: 2021-10-26 13:08:29 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: cyanoFilter
Version: 1.2.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:cyanoFilter.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings cyanoFilter_1.2.0.tar.gz
StartedAt: 2022-01-20 18:17:39 -0500 (Thu, 20 Jan 2022)
EndedAt: 2022-01-20 18:20:42 -0500 (Thu, 20 Jan 2022)
EllapsedTime: 183.2 seconds
RetCode: 0
Status:   OK  
CheckDir: cyanoFilter.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:cyanoFilter.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings cyanoFilter_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/cyanoFilter.Rcheck'
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'cyanoFilter/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'cyanoFilter' version '1.2.0'
* 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 whether package 'cyanoFilter' 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
Examples with CPU (user + system) or elapsed time > 5s
              user system elapsed
gateFunc     14.80   0.72   15.84
MarginEvents  3.06   0.39    5.25
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
          user system elapsed
gateFunc 12.81   0.04   13.01
* 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


Installation output

cyanoFilter.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/cyanoFilter_1.2.0.tar.gz && rm -rf cyanoFilter.buildbin-libdir && mkdir cyanoFilter.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=cyanoFilter.buildbin-libdir cyanoFilter_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL cyanoFilter_1.2.0.zip && rm cyanoFilter_1.2.0.tar.gz cyanoFilter_1.2.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 2609k  100 2609k    0     0  3909k      0 --:--:-- --:--:-- --:--:-- 3912k

install for i386

* installing *source* package 'cyanoFilter' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'cyanoFilter'
    finding HTML links ... done
    DebrisFilter                            html  
    MarginEvents                            html  
    PhytoFilter                             html  
    PhytopFilter                            html  
    accTest                                 html  
    accuracy                                html  
    cellmargin                              html  
    clusterExtract                          html  
    clusterExtractp                         html  
    cyanoFilter                             html  
    debrisNc                                html  
    fullFlowframe-DebrisFilter-method       html  
    fullFlowframe-MarginEvents-method       html  
    fullFlowframe-PhytopFilter-method       html  
    fullFlowframe                           html  
    gateFunc                                html  
    getChannel                              html  
    ggpairsDens                             html  
    ggplotDens                              html  
    ggplotDens2                             html  
    goodfcs                                 html  
    is.DebrisFilter                         html  
    is.MarginEvents                         html  
    is.PhytopFilter                         html  
    is.flowFrame                            html  
    is.flowSet                              html  
    lnTrans                                 html  
    newFlowframe                            html  
    nona                                    html  
    noneg                                   html  
    oneDgate                                html  
    pairsPlot                               html  
    pigmentGate                             html  
    plot-DebrisFilter-ANY-method            html  
    plot-MarginEvents-ANY-method            html  
    plot-PhytopFilter-ANY-method            html  
    reducedFlowframe-DebrisFilter-method    html  
    reducedFlowframe-MarginEvents-method    html  
    reducedFlowframe-PhytopFilter-method    html  
    reducedFlowframe                        html  
    retain                                  html  
    rowNumbers                              html  
    summaries-DebrisFilter-method           html  
    summaries-MarginEvents-method           html  
    summaries-PhytopFilter-method           html  
    summaries                               html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'cyanoFilter' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'cyanoFilter' as cyanoFilter_1.2.0.zip
* DONE (cyanoFilter)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'cyanoFilter' successfully unpacked and MD5 sums checked

Tests output


Example timings

cyanoFilter.Rcheck/examples_i386/cyanoFilter-Ex.timings

nameusersystemelapsed
MarginEvents3.060.395.25
PhytoFilter1.110.091.20
PhytopFilter0.790.050.85
accTest0.380.080.45
accuracy0.360.030.39
cellmargin0.470.040.52
clusterExtract1.260.211.46
clusterExtractp1.200.041.25
debrisNc0.610.070.68
fullFlowframe-MarginEvents-method0.380.010.39
fullFlowframe-PhytopFilter-method0.640.050.68
fullFlowframe0.480.030.52
gateFunc14.80 0.7215.84
ggpairsDens2.970.022.99
ggplotDens0.840.040.89
ggplotDens20.830.010.85
goodfcs0.050.000.06
is.DebrisFilter000
is.MarginEvents000
is.PhytopFilter000
is.flowFrame000
is.flowSet000
lnTrans0.390.030.42
newFlowframe0.330.040.36
nona0.110.010.13
noneg0.180.020.20
oneDgate0.280.000.28
pairsPlot2.750.042.80
pigmentGate0.320.000.31
reducedFlowframe-MarginEvents-method0.480.000.49
reducedFlowframe0.450.020.46
retain0.020.000.02
rowNumbers0.220.060.28
summaries-DebrisFilter-method0.340.030.37
summaries-MarginEvents-method0.380.010.39
summaries-PhytopFilter-method0.700.020.72
summaries0.360.030.39

cyanoFilter.Rcheck/examples_x64/cyanoFilter-Ex.timings

nameusersystemelapsed
MarginEvents2.600.162.75
PhytoFilter0.650.030.69
PhytopFilter0.700.060.77
accTest0.390.030.42
accuracy0.390.000.39
cellmargin0.320.030.35
clusterExtract1.040.041.07
clusterExtractp0.880.090.97
debrisNc0.800.030.83
fullFlowframe-MarginEvents-method0.390.020.41
fullFlowframe-PhytopFilter-method0.670.030.70
fullFlowframe0.310.040.36
gateFunc12.81 0.0413.01
ggpairsDens2.820.012.83
ggplotDens0.960.031.00
ggplotDens20.990.021.00
goodfcs0.030.000.03
is.DebrisFilter000
is.MarginEvents000
is.PhytopFilter000
is.flowFrame000
is.flowSet000
lnTrans0.270.000.27
newFlowframe0.230.020.25
nona0.110.000.10
noneg0.190.000.19
oneDgate0.220.030.25
pairsPlot2.860.062.92
pigmentGate0.340.020.36
reducedFlowframe-MarginEvents-method0.340.000.35
reducedFlowframe0.320.010.33
retain0.020.000.02
rowNumbers0.180.070.25
summaries-DebrisFilter-method0.320.030.34
summaries-MarginEvents-method0.320.010.34
summaries-PhytopFilter-method0.610.050.66
summaries0.690.000.69