Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-21 13:06:07 -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 CiteFuse on tokay2


To the developers/maintainers of the CiteFuse package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CiteFuse.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 323/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CiteFuse 1.6.0  (landing page)
Yingxin Lin
Snapshot Date: 2022-01-20 01:55:04 -0500 (Thu, 20 Jan 2022)
git_url: https://git.bioconductor.org/packages/CiteFuse
git_branch: RELEASE_3_14
git_last_commit: b774212
git_last_commit_date: 2021-10-26 12:58:54 -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: CiteFuse
Version: 1.6.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CiteFuse.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings CiteFuse_1.6.0.tar.gz
StartedAt: 2022-01-20 17:34:05 -0500 (Thu, 20 Jan 2022)
EndedAt: 2022-01-20 17:40:48 -0500 (Thu, 20 Jan 2022)
EllapsedTime: 403.1 seconds
RetCode: 0
Status:   OK  
CheckDir: CiteFuse.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CiteFuse.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings CiteFuse_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/CiteFuse.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 'CiteFuse/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CiteFuse' version '1.6.0'
* 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 'CiteFuse' 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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
DEgenesCross 5.94      0    5.93
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
plotHTO      5.83   0.04    5.86
DEgenesCross 5.45   0.01    5.47
DEbubblePlot 4.95   0.11    5.06
* 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

CiteFuse.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/CiteFuse_1.6.0.tar.gz && rm -rf CiteFuse.buildbin-libdir && mkdir CiteFuse.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CiteFuse.buildbin-libdir CiteFuse_1.6.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL CiteFuse_1.6.0.zip && rm CiteFuse_1.6.0.tar.gz CiteFuse_1.6.0.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 1812k  100 1812k    0     0  2575k      0 --:--:-- --:--:-- --:--:-- 2578k

install for i386

* installing *source* package 'CiteFuse' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'CiteFuse'
    finding HTML links ... done
    CITEseq_example                         html  
    CiteFuse                                html  
    DEbubblePlot                            html  
    DEcomparisonPlot                        html  
    DEgenes                                 html  
    DEgenesCross                            html  
    crossSampleDoublets                     html  
    geneADTnetwork                          html  
    igraphClustering                        html  
    importanceADT                           html  
    ligandReceptorTest                      html  
    lr_pair_subset                          html  
    normaliseExprs                          html  
    plotHTO                                 html  
    plotHTOSingle                           html  
    preprocessing                           html  
    readFrom10X                             html  
    reducedDimSNF                           html  
    sce_control_subset                      html  
    sce_ctcl_subset                         html  
    selectDEgenes                           html  
    spectralClustering                      html  
    visImportance                           html  
    visLigandReceptor                       html  
    visualiseDim                            html  
    visualiseExprs                          html  
    visualiseExprsList                      html  
    visualiseKNN                            html  
    withinSampleDoublets                    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 'CiteFuse' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CiteFuse' as CiteFuse_1.6.0.zip
* DONE (CiteFuse)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'CiteFuse' successfully unpacked and MD5 sums checked

Tests output


Example timings

CiteFuse.Rcheck/examples_i386/CiteFuse-Ex.timings

nameusersystemelapsed
CiteFuse1.500.191.71
DEbubblePlot3.050.393.43
DEcomparisonPlot3.360.003.36
DEgenes1.690.001.69
DEgenesCross5.940.005.93
crossSampleDoublets1.860.011.88
geneADTnetwork1.950.001.96
igraphClustering0.960.131.07
importanceADT2.400.032.44
ligandReceptorTest1.860.011.88
normaliseExprs1.320.021.33
plotHTO4.420.034.45
preprocessing0.760.000.76
readFrom10X000
reducedDimSNF1.360.081.44
selectDEgenes1.740.011.75
spectralClustering0.780.040.83
visImportance2.640.012.66
visLigandReceptor2.100.022.11
visualiseDim1.810.011.83
visualiseExprs2.250.082.33
visualiseExprsList1.490.031.51
visualiseKNN1.510.081.60
withinSampleDoublets2.030.052.07

CiteFuse.Rcheck/examples_x64/CiteFuse-Ex.timings

nameusersystemelapsed
CiteFuse2.390.032.42
DEbubblePlot4.950.115.06
DEcomparisonPlot3.260.003.26
DEgenes2.080.002.08
DEgenesCross5.450.015.47
crossSampleDoublets1.930.031.95
geneADTnetwork2.280.022.30
igraphClustering0.980.001.09
importanceADT2.240.032.27
ligandReceptorTest2.290.032.33
normaliseExprs1.690.061.75
plotHTO5.830.045.86
preprocessing0.870.030.90
readFrom10X000
reducedDimSNF1.440.011.46
selectDEgenes1.800.001.79
spectralClustering0.780.050.83
visImportance2.590.052.64
visLigandReceptor2.40.02.4
visualiseDim1.930.001.93
visualiseExprs2.530.002.53
visualiseExprsList2.040.032.08
visualiseKNN1.800.001.79
withinSampleDoublets1.860.081.94