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This page was generated on 2021-10-15 15:06:20 -0400 (Fri, 15 Oct 2021).

CHECK results for rnaEditr on tokay2

To the developers/maintainers of the rnaEditr package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/rnaEditr.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 1600/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
rnaEditr 1.2.0  (landing page)
Lanyu Zhang
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/rnaEditr
git_branch: RELEASE_3_13
git_last_commit: 377f691
git_last_commit_date: 2021-05-19 12:56:26 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 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: rnaEditr
Version: 1.2.0
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:rnaEditr.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings rnaEditr_1.2.0.tar.gz
StartedAt: 2021-10-15 04:40:30 -0400 (Fri, 15 Oct 2021)
EndedAt: 2021-10-15 04:46:31 -0400 (Fri, 15 Oct 2021)
EllapsedTime: 361.0 seconds
RetCode: 0
Status:   OK  
CheckDir: rnaEditr.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:rnaEditr.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings rnaEditr_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/rnaEditr.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'rnaEditr/DESCRIPTION' ... OK
* this is package 'rnaEditr' 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 'rnaEditr' 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
** 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

Installation output

rnaEditr.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/rnaEditr_1.2.0.tar.gz && rm -rf rnaEditr.buildbin-libdir && mkdir rnaEditr.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=rnaEditr.buildbin-libdir rnaEditr_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL rnaEditr_1.2.0.zip && rm rnaEditr_1.2.0.tar.gz rnaEditr_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
 39  890k   39  354k    0     0  1018k      0 --:--:-- --:--:-- --:--:-- 1018k
100  890k  100  890k    0     0  1458k      0 --:--:-- --:--:-- --:--:-- 1457k

install for i386

* installing *source* package 'rnaEditr' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'rnaEditr'
    finding HTML links ... done
    AddMetaData                             html  
    AllCloseByRegions                       html  
    AllCoeditedRegions                      html  
    AnnotateResults                         html  
    CountSamplesPerGroup                    html  
    CreateEditingTable                      html  
    CreateOutputDF                          html  
    CreateRdrop                             html  
    FindCorrelatedRegions                   html  
    GetMinPairwiseCor                       html  
    GetSitesLocations                       html  
    MakeModelFormula                        html  
    MarkCoeditedSites                       html  
    OrderSitesByLocation                    html  
    PlotEditingCorrelations                 html  
    RegionSummaryMethod                     html  
    SingleCloseByRegion                     html  
    SingleCoeditedRegion                    html  
    SitesToRegion                           html  
    SummarizeAllRegions                     html  
    SummarizeSingleRegion                   html  
    TestAssociations                        html  
    TestSingleRegion                        html  
    TransformToGR                           html  
    rnaedit_df                              html  
    t_rnaedit_df                            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 'rnaEditr' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'rnaEditr' as rnaEditr_1.2.0.zip
* DONE (rnaEditr)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'rnaEditr' successfully unpacked and MD5 sums checked

Tests output

rnaEditr.Rcheck/tests_i386/testthat.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
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(rnaEditr)
> 
> test_check("rnaEditr")

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[ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
> 
> proc.time()
   user  system elapsed 
  20.15    1.73   21.92

rnaEditr.Rcheck/tests_x64/testthat.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
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(rnaEditr)
> 
> test_check("rnaEditr")

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[ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]
> 
> proc.time()
   user  system elapsed 
  18.51    0.48   18.96

Example timings

rnaEditr.Rcheck/examples_i386/rnaEditr-Ex.timings

nameusersystemelapsed
AddMetaData0.810.261.13
AllCloseByRegions0.520.020.53
AllCoeditedRegions0.630.050.67
AnnotateResults2.590.212.81
CountSamplesPerGroup000
CreateEditingTable0.020.040.05
CreateOutputDF0.010.000.01
CreateRdrop0.000.010.02
FindCorrelatedRegions0.000.020.01
GetMinPairwiseCor0.000.010.02
GetSitesLocations0.080.000.08
MakeModelFormula000
MarkCoeditedSites0.010.000.02
OrderSitesByLocation000
PlotEditingCorrelations0.650.010.65
RegionSummaryMethod0.060.000.07
SingleCloseByRegion0.090.000.09
SingleCoeditedRegion0.170.000.17
SitesToRegion0.050.000.05
SummarizeAllRegions1.300.051.34
SummarizeSingleRegion0.120.000.13
TestAssociations1.270.031.30
TestSingleRegion0.040.000.04
TransformToGR0.070.000.06

rnaEditr.Rcheck/examples_x64/rnaEditr-Ex.timings

nameusersystemelapsed
AddMetaData1.330.061.39
AllCloseByRegions0.470.020.48
AllCoeditedRegions0.550.060.61
AnnotateResults2.840.042.89
CountSamplesPerGroup000
CreateEditingTable0.050.000.04
CreateOutputDF0.020.000.02
CreateRdrop000
FindCorrelatedRegions0.010.000.02
GetMinPairwiseCor000
GetSitesLocations0.090.000.09
MakeModelFormula000
MarkCoeditedSites0.020.000.02
OrderSitesByLocation000
PlotEditingCorrelations0.690.000.68
RegionSummaryMethod0.060.000.07
SingleCloseByRegion0.130.000.12
SingleCoeditedRegion0.170.000.17
SitesToRegion0.040.000.05
SummarizeAllRegions1.600.011.61
SummarizeSingleRegion0.090.020.11
TestAssociations1.560.001.56
TestSingleRegion0.040.000.03
TransformToGR0.070.000.08