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CHECK report for derfinderHelper on tokay2

This page was generated on 2019-04-09 12:21:26 -0400 (Tue, 09 Apr 2019).

Package 413/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
derfinderHelper 1.17.1
Leonardo Collado-Torres
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/derfinderHelper
Branch: master
Last Commit: e282716
Last Changed Date: 2018-12-03 16:42:42 -0400 (Mon, 03 Dec 2018)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  ERROR 
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK [ ERROR ] OK 
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  ERROR  OK 
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK 

Summary

Package: derfinderHelper
Version: 1.17.1
Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:derfinderHelper.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings derfinderHelper_1.17.1.tar.gz
StartedAt: 2019-04-09 02:14:48 -0400 (Tue, 09 Apr 2019)
EndedAt: 2019-04-09 02:16:57 -0400 (Tue, 09 Apr 2019)
EllapsedTime: 129.1 seconds
RetCode: 1
Status:  ERROR  
CheckDir: derfinderHelper.Rcheck
Warnings: NA

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:derfinderHelper.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings derfinderHelper_1.17.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/derfinderHelper.Rcheck'
* using R Under development (unstable) (2019-03-09 r76216)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'derfinderHelper/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'derfinderHelper' version '1.17.1'
* 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 'derfinderHelper' 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
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'test-all.R'
 ERROR
Running the tests in 'tests/test-all.R' failed.
Last 13 lines of output:
  -- 1. Failure: Correct output (@test_fstats.apply.R#45)  -----------------------
  `x` not identical to `expected`.
  Lengths differ: 996 is not 991
  
  -- 2. Failure: Correct output (@test_fstats.apply.R#46)  -----------------------
  `x` not identical to `expected`.
  Lengths differ: 996 is not 991
  
  == testthat results  ===========================================================
  OK: 5 SKIPPED: 0 FAILED: 2
  1. Failure: Correct output (@test_fstats.apply.R#45) 
  2. Failure: Correct output (@test_fstats.apply.R#46) 
  
  Error: testthat unit tests failed
  Execution halted
** running tests for arch 'x64' ...
  Running 'test-all.R'
 ERROR
Running the tests in 'tests/test-all.R' failed.
Last 13 lines of output:
  -- 1. Failure: Correct output (@test_fstats.apply.R#45)  -----------------------
  `x` not identical to `expected`.
  Lengths differ: 996 is not 991
  
  -- 2. Failure: Correct output (@test_fstats.apply.R#46)  -----------------------
  `x` not identical to `expected`.
  Lengths differ: 996 is not 991
  
  == testthat results  ===========================================================
  OK: 5 SKIPPED: 0 FAILED: 2
  1. Failure: Correct output (@test_fstats.apply.R#45) 
  2. Failure: Correct output (@test_fstats.apply.R#46) 
  
  Error: testthat unit tests failed
  Execution halted
* 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: 2 ERRORs
See
  'C:/Users/biocbuild/bbs-3.9-bioc/meat/derfinderHelper.Rcheck/00check.log'
for details.

Installation output

derfinderHelper.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/derfinderHelper_1.17.1.tar.gz && rm -rf derfinderHelper.buildbin-libdir && mkdir derfinderHelper.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=derfinderHelper.buildbin-libdir derfinderHelper_1.17.1.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL derfinderHelper_1.17.1.zip && rm derfinderHelper_1.17.1.tar.gz derfinderHelper_1.17.1.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 13274  100 13274    0     0   213k      0 --:--:-- --:--:-- --:--:--  240k

install for i386

* installing *source* package 'derfinderHelper' ...
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'derfinderHelper'
    finding HTML links ... done
    derfinderHelper-package                 html  
    fstats.apply                            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 'derfinderHelper' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'derfinderHelper' as derfinderHelper_1.17.1.zip
* DONE (derfinderHelper)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'derfinderHelper' successfully unpacked and MD5 sums checked

Tests output

derfinderHelper.Rcheck/tests_i386/test-all.Rout.fail


R Under development (unstable) (2019-03-09 r76216) -- "Unsuffered Consequences"
Copyright (C) 2019 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.

> ## Disable the tests if the system variable 'R_DISABLE_TESTS' is set to TRUE
> 
> flag <- as.logical(Sys.getenv('R_DISABLE_TESTS'))
> if(is.na(flag) | flag == FALSE) {
+     library('testthat')
+     test_check('derfinderHelper')
+ }
Loading required package: derfinderHelper
-- 1. Failure: Correct output (@test_fstats.apply.R#45)  -----------------------
`x` not identical to `expected`.
Lengths differ: 996 is not 991

-- 2. Failure: Correct output (@test_fstats.apply.R#46)  -----------------------
`x` not identical to `expected`.
Lengths differ: 996 is not 991

== testthat results  ===========================================================
OK: 5 SKIPPED: 0 FAILED: 2
1. Failure: Correct output (@test_fstats.apply.R#45) 
2. Failure: Correct output (@test_fstats.apply.R#46) 

Error: testthat unit tests failed
Execution halted

derfinderHelper.Rcheck/tests_x64/test-all.Rout.fail


R Under development (unstable) (2019-03-09 r76216) -- "Unsuffered Consequences"
Copyright (C) 2019 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.

> ## Disable the tests if the system variable 'R_DISABLE_TESTS' is set to TRUE
> 
> flag <- as.logical(Sys.getenv('R_DISABLE_TESTS'))
> if(is.na(flag) | flag == FALSE) {
+     library('testthat')
+     test_check('derfinderHelper')
+ }
Loading required package: derfinderHelper
-- 1. Failure: Correct output (@test_fstats.apply.R#45)  -----------------------
`x` not identical to `expected`.
Lengths differ: 996 is not 991

-- 2. Failure: Correct output (@test_fstats.apply.R#46)  -----------------------
`x` not identical to `expected`.
Lengths differ: 996 is not 991

== testthat results  ===========================================================
OK: 5 SKIPPED: 0 FAILED: 2
1. Failure: Correct output (@test_fstats.apply.R#45) 
2. Failure: Correct output (@test_fstats.apply.R#46) 

Error: testthat unit tests failed
Execution halted

Example timings

derfinderHelper.Rcheck/examples_i386/derfinderHelper-Ex.timings

nameusersystemelapsed
fstats.apply0.170.000.17

derfinderHelper.Rcheck/examples_x64/derfinderHelper-Ex.timings

nameusersystemelapsed
fstats.apply0.220.030.38