Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-17 13:06:15 -0500 (Mon, 17 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4328
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4077
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4138
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 FELLA on tokay2


To the developers/maintainers of the FELLA package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/FELLA.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 636/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
FELLA 1.14.0  (landing page)
Sergio Picart-Armada
Snapshot Date: 2022-01-16 01:55:05 -0500 (Sun, 16 Jan 2022)
git_url: https://git.bioconductor.org/packages/FELLA
git_branch: RELEASE_3_14
git_last_commit: 89f6b9d
git_last_commit_date: 2021-10-26 12:42:40 -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: FELLA
Version: 1.14.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:FELLA.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings FELLA_1.14.0.tar.gz
StartedAt: 2022-01-16 20:36:07 -0500 (Sun, 16 Jan 2022)
EndedAt: 2022-01-16 20:40:07 -0500 (Sun, 16 Jan 2022)
EllapsedTime: 240.0 seconds
RetCode: 0
Status:   OK  
CheckDir: FELLA.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:FELLA.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings FELLA_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/FELLA.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 'FELLA/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'FELLA' version '1.14.0'
* 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 'FELLA' 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 ... NOTE
buildGraphFromKEGGREST: no visible global function definition for
  'capture.output'
Undefined global functions or variables:
  capture.output
Consider adding
  importFrom("utils", "capture.output")
to your NAMESPACE file.
* 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
** 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: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.14-bioc/meat/FELLA.Rcheck/00check.log'
for details.



Installation output

FELLA.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/FELLA_1.14.0.tar.gz && rm -rf FELLA.buildbin-libdir && mkdir FELLA.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=FELLA.buildbin-libdir FELLA_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL FELLA_1.14.0.zip && rm FELLA_1.14.0.tar.gz FELLA_1.14.0.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 1000k  100 1000k    0     0  3821k      0 --:--:-- --:--:-- --:--:-- 3833k

install for i386

* installing *source* package 'FELLA' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'FELLA'
    finding HTML links ... done
    D.diffusion                             html  
    D.hypergeom                             html  
    D.keggdata                              html  
    D.pagerank                              html  
    FELLA.DATA                              html  
    FELLA                                   html  
    FELLA.USER                              html  
    FELLA.sample                            html  
    U.diffusion                             html  
    U.hypergeom                             html  
    U.pagerank                              html  
    U.userinput                             html  
    checkArguments                          html  
    data-funs                               html  
    dot-params                              html  
    enrich-funs                             html  
    export-funs                             html  
    getBackground                           html  
    getCom                                  html  
    getExcluded                             html  
    getGraph                                html  
    getInfo                                 html  
    getInput                                html  
    getMatrix                               html  
    getName                                 html  
    getPscores                              html  
    getPvaluesSize                          html  
    getStatus                               html  
    getSums                                 html  
    getValid                                html  
    infere.con2ec                           html  
    input.sample                            html  
    is.FELLA.DATA                           html  
    is.FELLA.USER                           html  
    largestcc                               html  
    launchApp                               html  
    listApprox                              html  
    listCategories                          html  
    listInternalDatabases                   html  
    listMethods                             html  
    mytriangle                              html  
    plotBipartite                           html  
    plotLegend                              html  
    sanitise                                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 'FELLA' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'FELLA' as FELLA_1.14.0.zip
* DONE (FELLA)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'FELLA' successfully unpacked and MD5 sums checked

Tests output

FELLA.Rcheck/tests_i386/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 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(FELLA)
> 
> test_check("FELLA")

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== Skipped tests ===============================================================
* 32-bit Windows installations may hit the allocation limit when using buildGraphFromKEGGREST (1)

[ FAIL 0 | WARN 0 | SKIP 1 | PASS 166 ]
> 
> proc.time()
   user  system elapsed 
  15.09    0.43   15.50 

FELLA.Rcheck/tests_x64/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 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(FELLA)
> 
> test_check("FELLA")

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[ FAIL 0 | WARN 0 | SKIP 0 | PASS 168 ]
> 
> proc.time()
   user  system elapsed 
  23.50    2.45   55.60 

Example timings

FELLA.Rcheck/examples_i386/FELLA-Ex.timings

nameusersystemelapsed
FELLA0.370.040.41
FELLA.sample0.020.000.02
checkArguments000
data-funs4.310.034.35
enrich-funs2.180.042.21
export-funs0.230.020.25
getBackground1.750.051.80
getCom0.010.000.01
getExcluded0.020.000.02
getGraph0.000.010.01
getInfo0.000.020.02
getInput0.010.010.03
getMatrix0.050.000.05
getName0.030.000.03
getPscores0.030.020.05
getPvaluesSize0.030.000.03
getStatus0.020.010.03
getSums0.350.000.36
getValid0.040.020.05
infere.con2ec000
input.sample000
is.FELLA.DATA0.010.000.02
is.FELLA.USER0.030.020.04
largestcc0.020.000.02
launchApp000
listApprox000
listCategories000
listInternalDatabases000
listMethods000
mytriangle0.010.000.01
plotBipartite0.070.010.08
plotLegend0.030.000.03
sanitise000

FELLA.Rcheck/examples_x64/FELLA-Ex.timings

nameusersystemelapsed
FELLA0.350.030.38
FELLA.sample0.010.000.01
checkArguments000
data-funs4.440.024.45
enrich-funs2.650.002.66
export-funs0.190.000.19
getBackground1.270.001.26
getCom000
getExcluded0.000.020.01
getGraph000
getInfo0.020.000.01
getInput0.010.000.02
getMatrix0.030.000.03
getName0.020.000.02
getPscores0.020.010.03
getPvaluesSize0.010.000.01
getStatus0.020.000.02
getSums0.400.000.41
getValid0.030.000.03
infere.con2ec000
input.sample000
is.FELLA.DATA0.020.000.02
is.FELLA.USER0.000.010.01
largestcc0.000.020.02
launchApp000
listApprox000
listCategories000
listInternalDatabases000
listMethods000
mytriangle0.010.000.02
plotBipartite0.060.000.06
plotLegend0.040.000.03
sanitise000