From simon.urbanek at r-project.org  Tue May  2 19:09:36 2017
From: simon.urbanek at r-project.org (Simon Urbanek)
Date: Tue, 2 May 2017 13:09:36 -0400
Subject: [Rd] R 3.4 and mclapply assertion failure - is this a bug?
In-Reply-To: <1190710968.753603.1493723563590@mail.yahoo.com>
References: <1190710968.753603.1493723563590.ref@mail.yahoo.com>
 <1190710968.753603.1493723563590@mail.yahoo.com>
Message-ID: <8315FA34-455A-41E3-92E6-5B6AB715AD59@r-project.org>

Yan,

this looks like an interaction of OpenMP in data.table and forking - you may want to report that to Matt as he can shed more light on that. He has been complaining that we didn't enable OpenMP before 3.4 so he probably knows about the issue and how to fix it.

Cheers,
Simon


> On May 2, 2017, at 7:12 AM, Yan Alperovych via R-devel <r-devel at r-project.org> wrote:
> 
> Dear all, 
> I am not sure if this is a bug, so I prefer to post it here before filing.
> After upgrading to 3.4 I encounter the following message with mclapply:
> Assertion failure at kmp_runtime.cpp(6480): __kmp_thread_pool == __null.OMP: Error #13: Assertion failure at kmp_runtime.cpp(6480).OMP: Hint: Please submit a bug report with this message, compile and run commands used, and machine configuration info including native compiler and operating system versions. Faster response will be obtained by including all program sources. For information on submitting this issue, please see http://www.intel.com/software/products/support/.
> The complete pdf of what console produces is here:https://www.dropbox.com/s/navugg28gqne14p/R%20Console.pdf?dl=0
> The batch with commands to (hopefully) reproduce it is here:https://www.dropbox.com/s/8pd0ij3kowigdlc/20170430%20-%20R%20mclapply%20bug%20report.r?dl=0
> The data for the reproducible example is here:
> https://www.dropbox.com/s/2enoeapu7jgcxwd/z.Rdata?dl=0
> Note that this behavior was not present in R 3.3.3 on the same machine and all the batch was working without any errors.
> The sessionInfo():
> R version 3.4.0 (2017-04-21)Platform: x86_64-apple-darwin15.6.0 (64-bit)Running under: macOS Sierra 10.12.4
> Matrix products: defaultBLAS: /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libRblas.0.dylibLAPACK: /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libRlapack.dylib
> locale:[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
> attached base packages:[1] parallel  compiler  stats     graphics  grDevices utils     datasets  methods   base     
> other attached packages: [1] data.table_1.10.4      numbers_0.6-6          microbenchmark_1.4-2.1 zoo_1.8-0              doParallel_1.0.10      iterators_1.0.8        [7] foreach_1.4.3          RSclient_0.7-3         stringi_1.1.5          stringr_1.2.0          lubridate_1.6.0        plyr_1.8.4            
> loaded via a namespace (and not attached): [1] Rcpp_0.12.10     lattice_0.20-35  codetools_0.2-15 grid_3.4.0       gtable_0.2.0     magrittr_1.5     scales_0.4.1     ggplot2_2.2.1    [9] lazyeval_0.2.0   tools_3.4.0      munsell_0.4.3    colorspace_1.3-2 tibble_1.3.0    
> 
> Thank you in advance for help/hints, Yan
> 	[[alternative HTML version deleted]]
> 
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[Rd] R 3.4 and mclapply assertion failure - is this a bug?
Simon Urbanek