Entering edit mode
This was working a couple weeks ago, it's not clear what may changed in my environment. Restarting my session and reinstalling snow and rmpi hasn't resolved. Anyone seen this or have an idea what's going on?
> cl <- makeCluster(numcores) #make that many nodes Loading required namespace: Rmpi Failed with error: ‘.onLoad failed in loadNamespace() for 'Rmpi', details: call: inDL(x, as.logical(local), as.logical(now), ...) error: unable to load shared object 'C:/Users/acb/Documents/R/win-library/3.3/Rmpi/libs/x64/Rmpi.dll': LoadLibrary failure: The specified module could not be found. ’ Error in makeMPIcluster(spec, ...) : the `Rmpi' package is needed for MPI clusters.
sessionInfo returns:
> sessionInfo() R version 3.4.4 (2018-03-15) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows >= 8 x64 (build 9200) Matrix products: default locale: [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 LC_MONETARY=English_United States.1252 [4] LC_NUMERIC=C LC_TIME=English_United States.1252 attached base packages: [1] parallel stats graphics grDevices utils datasets methods base other attached packages: [1] snow_0.4-2 flowClust_3.16.0 stringr_1.3.0 ggcyto_1.6.1 flowWorkspace_3.26.7 [6] ncdfFlow_2.24.0 BH_1.66.0-1 RcppArmadillo_0.8.500.0 ggplot2_2.2.1 flowCore_1.44.2 loaded via a namespace (and not attached): [1] Rcpp_0.12.16 mvtnorm_1.0-7 lattice_0.20-35 corpcor_1.6.9 assertthat_0.2.0 R6_2.2.2 [7] plyr_1.8.4 MatrixModels_0.4-1 stats4_3.4.4 pcaPP_1.9-73 coda_0.19-1 pillar_1.2.2 [13] zlibbioc_1.24.0 rlang_0.2.0 lazyeval_0.2.1 data.table_1.11.0 SparseM_1.77 Rgraphviz_2.22.0 [19] hexbin_1.27.2 Matrix_1.2-14 munsell_0.4.3 compiler_3.4.4 pkgconfig_2.0.1 BiocGenerics_0.24.0 [25] mnormt_1.5-5 mcmc_0.9-5 IDPmisc_1.1.17 tibble_1.4.2 gridExtra_2.3 matrixStats_0.53.1 [31] XML_3.98-1.11 flowViz_1.42.0 rrcov_1.4-3 dplyr_0.7.4 MASS_7.3-49 grid_3.4.4 [37] gtable_0.2.0 magrittr_1.5 scales_0.5.0 graph_1.56.0 KernSmooth_2.23-15 stringi_1.1.7 [43] bindrcpp_0.2.2 latticeExtra_0.6-28 robustbase_0.93-0 RColorBrewer_1.1-2 tools_3.4.4 Biobase_2.38.0 [49] glue_1.2.0 DEoptimR_1.0-8 yaml_2.1.19 clue_0.3-55 colorspace_1.3-2 cluster_2.0.7-1 [55] bindr_0.1.1 quantreg_5.35 MCMCpack_1.4-2
See the help page for
?snow::makeClusterand note that the default type of cluster is from the option "type" -- I'm surprised that this is 'MPI'. Perhaps previously you were usingmakeSOCKcluster().Ah, yes I see. I need to either specify SOCK as the type or use makeSOCKcluster(). Maybe the previous version the default was SOCK? I know I'm using the same code, at least this line, as what was running a while back. I did get into 'package he#*' a while ago and had to re-install a few things, maybe during that process I inadvertently ended up with a new/different version of SNOW. Thanks for the reply.