Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2021-11-29 15:05:40 -0500 (Mon, 29 Nov 2021).

CHECK results for SIMAT on tokay2

To the developers/maintainers of the SIMAT package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SIMAT.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 1797/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SIMAT 1.26.0  (landing page)
M. R. Nezami Ranjbar
Snapshot Date: 2021-11-28 04:15:06 -0500 (Sun, 28 Nov 2021)
git_url: https://git.bioconductor.org/packages/SIMAT
git_branch: RELEASE_3_14
git_last_commit: 03f478f
git_last_commit_date: 2021-10-26 12:19:16 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.3 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: SIMAT
Version: 1.26.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SIMAT.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings SIMAT_1.26.0.tar.gz
StartedAt: 2021-11-29 05:09:31 -0500 (Mon, 29 Nov 2021)
EndedAt: 2021-11-29 05:11:15 -0500 (Mon, 29 Nov 2021)
EllapsedTime: 104.0 seconds
RetCode: 0
Status:   OK  
CheckDir: SIMAT.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SIMAT.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings SIMAT_1.26.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/SIMAT.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 'SIMAT/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'SIMAT' version '1.26.0'
* 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 'SIMAT' 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 'runTests.R'
 OK
** running tests for arch 'x64' ...
  Running 'runTests.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

SIMAT.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/SIMAT_1.26.0.tar.gz && rm -rf SIMAT.buildbin-libdir && mkdir SIMAT.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SIMAT.buildbin-libdir SIMAT_1.26.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL SIMAT_1.26.0.zip && rm SIMAT_1.26.0.tar.gz SIMAT_1.26.0.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  925k  100  925k    0     0  2739k      0 --:--:-- --:--:-- --:--:-- 2745k

install for i386

* installing *source* package 'SIMAT' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'SIMAT'
    finding HTML links ... done
    Library                                 html  
    RItable                                 html  
    Run                                     html  
    SIMAT-package                           html  
    Targets                                 html  
    getEIC                                  html  
    getPeak                                 html  
    getPeakScore                            html  
    getRI                                   html  
    getRIStandard                           html  
    getScore                                html  
    getTarget                               html  
    getTargetTable                          html  
    optFrag                                 html  
    plotEIC                                 html  
    plotTIC                                 html  
    putTargetTable                          html  
    readCDF                                 html  
    readMSL                                 html  
    target.table                            html  
    writeMSL                                html  
    writeResult                             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 'SIMAT' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SIMAT' as SIMAT_1.26.0.zip
* DONE (SIMAT)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'SIMAT' successfully unpacked and MD5 sums checked

Tests output

SIMAT.Rcheck/tests_i386/runTests.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.

> ## function for RUnit tests
> 
> BiocGenerics:::testPackage("SIMAT")


RUNIT TEST PROTOCOL -- Mon Nov 29 05:11:05 2021 
*********************************************** 
Number of test functions: 16 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
SIMAT RUnit Tests - 16 test functions, 0 errors, 0 failures
Number of test functions: 16 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
   2.42    0.14    2.54 

SIMAT.Rcheck/tests_x64/runTests.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.

> ## function for RUnit tests
> 
> BiocGenerics:::testPackage("SIMAT")


RUNIT TEST PROTOCOL -- Mon Nov 29 05:11:08 2021 
*********************************************** 
Number of test functions: 16 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
SIMAT RUnit Tests - 16 test functions, 0 errors, 0 failures
Number of test functions: 16 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
   2.21    0.18    2.39 

Example timings

SIMAT.Rcheck/examples_i386/SIMAT-Ex.timings

nameusersystemelapsed
Library0.000.020.01
RItable000
Run0.070.010.10
Targets000
getEIC0.180.030.20
getPeak0.260.070.33
getPeakScore0.280.010.29
getRI000
getRIStandard0.020.000.02
getScore000
getTarget1.580.061.64
getTargetTable000
optFrag1.700.021.72
plotEIC0.700.020.72
plotTIC0.220.010.23
putTargetTable0.020.000.02
readCDF1.870.022.06
readMSL0.020.000.02
target.table000
writeMSL000
writeResult0.500.010.52

SIMAT.Rcheck/examples_x64/SIMAT-Ex.timings

nameusersystemelapsed
Library000
RItable0.000.010.01
Run0.070.000.06
Targets000
getEIC0.070.020.09
getPeak0.390.000.39
getPeakScore0.250.010.27
getRI000
getRIStandard0.020.000.01
getScore000
getTarget1.480.001.49
getTargetTable000
optFrag1.440.001.44
plotEIC0.690.020.71
plotTIC0.220.000.22
putTargetTable000
readCDF1.600.021.61
readMSL0.010.000.01
target.table000
writeMSL000
writeResult0.440.000.44