[Bioc-devel] BiocParallel on macosx: socketConnection failures with MulticoreParam
Does it help to use the argument manager.hostname="localhost" (or indeed the name of your computer) following https://support.bioconductor.org/p/88307/#88874 ? and can you clarify about how you explored using different ports? See also ?SnowParam section 'Global Options' Martin
On 11/22/2017 12:56 PM, Vincent Carey wrote:
from example(bplapply), after register(MulticoreParam(2, timeout=5)) bplppl> bplapply(1:10, fun) *Error in socketConnection(host, port, TRUE, TRUE, "a+b", timeout = timeout) : * * cannot open the connection* *In addition: Warning message:* *In socketConnection(host, port, TRUE, TRUE, "a+b", timeout = timeout) :* * problem in listening on this socket* I have tried turning off firewall, setting an open port, etc., to no avail.
options(mc.cores=2); system.time(mclapply(1:10, function(x)Sys.sleep(1)))
user system elapsed
0.264 0.114 5.014
sessionInfo()
R version 3.4.3 beta (2017-11-20 r73757) Platform: x86_64-apple-darwin15.6.0 (64-bit) Running under: macOS Sierra 10.12.6 Matrix products: default BLAS: /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libRblas.0.dylib LAPACK: /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 stats graphics grDevices utils datasets methods [8] base other attached packages: [1] boot_1.3-20 BiocParallel_1.12.0 rmarkdown_1.8 loaded via a namespace (and not attached): [1] compiler_3.4.3 backports_1.1.1 magrittr_1.5 rprojroot_1.2 [5] tools_3.4.3 htmltools_0.3.6 Rcpp_0.12.13 stringi_1.1.6 [9] knitr_1.17 stringr_1.2.0 digest_0.6.12 evaluate_0.10.1 [[alternative HTML version deleted]]
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