Package: BiocParallel

Version: 1.14.2

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:BiocParallel.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings BiocParallel_1.14.2.tar.gz

StartedAt: 2018-10-16 20:06:51 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 20:10:57 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 245.8 seconds

RetCode: 1

Status:  ERROR

CheckDir: BiocParallel.Rcheck

Warnings: NA

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:BiocParallel.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings BiocParallel_1.14.2.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/BiocParallel.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BiocParallel/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BiocParallel’ version ‘1.14.2’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘BiocParallel’ 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
* 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 ... NOTE
Unexported objects imported by ':::' calls:
  ‘BatchJobs:::checkDir’ ‘parallel:::closeNode’ ‘parallel:::recvData’
  ‘parallel:::recvOneData’ ‘parallel:::sendData’
  See the note in ?`:::` about the use of this operator.
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
File ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library/BiocParallel/libs/BiocParallel.so’:
  Found ‘_rand’, possibly from ‘rand’ (C)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs. The detected symbols are linked into the code but
might come from libraries and not actually be called.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                       user system elapsed
bpaggregate           8.326  0.487   8.813
BatchtoolsParam-class 3.012  1.036  11.117
SnowParam-class       0.402  0.069   6.091
ipcmutex              0.078  0.169   5.169
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘test.R’
 ERROR
Running the tests in ‘tests/test.R’ failed.
Last 13 lines of output:
  
     test_SnowParam.R 
       test_SnowParam_MPI 
       test_SnowParam_coerce_from_MPI 
  
     test_bpiterate.R 
       test_bpiterate_Params 
  
  
  Error in BiocGenerics:::testPackage("BiocParallel") : 
    unit tests failed for package BiocParallel
  Execution halted
  Error in unserialize(node$con) : error reading from connection
  Calls: local ... doTryCatch -> recvData -> recvData.SOCKnode -> unserialize
  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: 1 ERROR, 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.7-bioc/meat/BiocParallel.Rcheck/00check.log’
for details.

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### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL BiocParallel
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’
* installing *source* package ‘BiocParallel’ ...
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.5/Resources/library/BH/include" -I/usr/local/include   -fPIC  -Wall -g -O2 -c ipcmutex.cpp -o ipcmutex.o
clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o BiocParallel.so ipcmutex.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/3.5/Resources/library/BiocParallel/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (BiocParallel)

R version 3.5.1 Patched (2018-07-12 r74967) -- "Feather Spray"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (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.

> BiocGenerics:::testPackage("BiocParallel")
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
cleaning registry...
cleaning registry...
cleaning registry...
cleaning registry...
Adding 5 jobs ...
Submitting 5 jobs in 2 chunks using cluster functions 'Interactive' ...

cleaning registry...
Adding 5 jobs ...
Submitting 5 jobs in 2 chunks using cluster functions 'Multicore' ...

cleaning registry...
Adding 5 jobs ...
Submitting 5 jobs in 2 chunks using cluster functions 'Socket' ...

cleaning registry...
Adding 5 jobs ...
Submitting 5 jobs in 4 chunks using cluster functions 'Multicore' ...

cleaning registry...
cleaning registry...
Timing stopped at: 0 0 0
Error in DEACTIVATED("MPI tests not run") : MPI tests not run
In addition: Warning messages:
1: In result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
2: In result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
3: In result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
4: In result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
5: In result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
6: In result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
7: In result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
8: In result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
9: In result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
10: In result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Timing stopped at: 0.196 0.025 0.261
Error in DEACTIVATED("MPI tests not run") : MPI tests not run
test_bpiterate_Params
  chunks greater than number of workers
    ith param
    ith param
    ith param
  chunks less than number of workers [1]
    ith param
    ith param
Timing stopped at: 0.329 0.159 2.663
Error : failed to stop 'SOCKcluster' cluster: invalid connection
test_bpiterate_REDUCE
  setup
    ith param
      no REDUCE
      REDUCE
      'reduce.in.order' FALSE [1]
      'reduce.in.order' FALSE [2]
      'reduce.in.order' TRUE [1]
      'reduce.in.order' TRUE [2]
    ith param
      no REDUCE
      REDUCE
      'reduce.in.order' FALSE [1]
      'reduce.in.order' FALSE [2]
      'reduce.in.order' TRUE [1]
      'reduce.in.order' TRUE [2]
  cleanup
test_bpiterate_REDUCE DONE
test_bplapply_Params
  setup
  sqrt
    serial
    snow
    dopar
    batchjobs
    mc
  empty input
    serial
    snow
    dopar
    batchjobs
    mc
  BatchJobs
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
  cleanup
test_bplapply_Params DONE
test_bplapply_symbols
  setup
    serial
    snow
    dopar
    mc
  cleanup
test_bplapply_symbols DONE
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
resuming previous calculation ... 
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
resuming previous calculation ... 
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
resuming previous calculation ... 
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
resuming previous calculation ... 
resuming previous calculation ... 
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
resuming previous calculation ... 
resuming previous calculation ... 
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries
Warning in result_fetch(res@ptr, n = n) :
  Don't need to call dbFetch() for statements, only for queries


RUNIT TEST PROTOCOL -- Tue Oct 16 20:10:50 2018 
*********************************************** 
Number of test functions: 57 
Number of deactivated test functions: 2 
Number of errors: 1 
Number of failures: 0 

 
1 Test Suite : 
BiocParallel RUnit Tests - 57 test functions, 1 error, 0 failures
DEACTIVATED test_SnowParam_MPI: MPI tests not run
DEACTIVATED test_SnowParam_coerce_from_MPI: MPI tests not run
ERROR in test_bpiterate_Params: Error : failed to stop 'SOCKcluster' cluster: invalid connection

Test files with failing tests

   test_SnowParam.R 
     test_SnowParam_MPI 
     test_SnowParam_coerce_from_MPI 

   test_bpiterate.R 
     test_bpiterate_Params 


Error in BiocGenerics:::testPackage("BiocParallel") : 
  unit tests failed for package BiocParallel
Execution halted
Error in unserialize(node$con) : error reading from connection
Calls: local ... doTryCatch -> recvData -> recvData.SOCKnode -> unserialize
Execution halted
Error in unserialize(node$con) : error reading from connection
Calls: local ... doTryCatch -> recvData -> recvData.SOCKnode -> unserialize
Execution halted

name	user	system	elapsed
BatchJobsParam-class	3.355	0.096	3.489
BatchtoolsParam-class	3.012	1.036	11.117
BiocParallelParam-class	0.005	0.001	0.006
DoparParam-class	0.002	0.000	0.002
MulticoreParam-class	0.779	0.412	2.590
SerialParam-class	0.015	0.005	0.020
SnowParam-class	0.402	0.069	6.091
bpaggregate	8.326	0.487	8.813
bpiterate	0.011	0.001	0.013
bplapply	0.040	0.042	0.076
bploop	0.001	0.000	0.001
bpmapply	0.245	0.434	0.605
bpok	0.093	0.060	3.414
bpschedule	0.051	0.034	0.108
bptry	0.056	0.111	0.162
bpvalidate	0.301	0.042	0.353
bpvec	0.746	0.258	0.906
bpvectorize	0.037	0.030	0.108
ipcmutex	0.078	0.169	5.169
register	0.064	0.092	0.157