I’m running rstudioserver using the AMI: ami-3b0c205e on an EC2 AWS instance to run a Stan model that I developed locally on my OSX machine.
Everything seems to work fine and optimizing
seems to work fine on the model as well. However, when I run my sampling call, I get the error Error in unserialize(socklist[[n]]) : error reading from connection
. I considered that this might be a memory issue and have tried the xlarge (4 cores, 16gb RAM) and 2xlarge (8 cores, 32gb RAM) instances and got the same error both times. When I run this on my mac, which has 16gb of RAM, sampling is slow but works fine.
The code I’m using to run the model is here, though it requires data not on github to run. The model itself is here.
Does anyone know what might be going on?
Below is the session info from the aws rstudioserver session:
sessionInfo()
R version 3.4.2 (2017-09-28)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 16.04.3 LTS
Matrix products: default
BLAS: /usr/lib/openblas-base/libblas.so.3
LAPACK: /usr/lib/libopenblasp-r0.2.18.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] rstan_2.16.2 StanHeaders_2.16.0-1 bindrcpp_0.2.2 forcats_0.3.0 stringr_1.2.0 dplyr_0.7.4
[7] purrr_0.2.4 readr_1.1.1 tidyr_0.8.0 tibble_1.4.2 ggplot2_2.2.1 tidyverse_1.2.1
loaded via a namespace (and not attached):
[1] Rcpp_0.12.16 cellranger_1.1.0 pillar_1.2.2 compiler_3.4.2 plyr_1.8.4 bindr_0.1.1 tools_3.4.2
[8] lubridate_1.7.4 jsonlite_1.5 gtable_0.2.0 nlme_3.1-131 lattice_0.20-35 pkgconfig_2.0.1 rlang_0.2.0
[15] psych_1.8.4 cli_1.0.0 rstudioapi_0.7 yaml_2.1.14 parallel_3.4.2 haven_1.1.1 gridExtra_2.3
[22] xml2_1.2.0 httr_1.3.1 hms_0.4.2 stats4_3.4.2 grid_3.4.2 glue_1.2.0 inline_0.3.14
[29] R6_2.2.2 readxl_1.1.0 foreign_0.8-69 modelr_0.1.2 reshape2_1.4.2 magrittr_1.5 codetools_0.2-15
[36] scales_0.5.0 rvest_0.3.2 assertthat_0.2.0 mnormt_1.5-5 colorspace_1.3-2 stringi_1.1.5 lazyeval_0.2.0
[43] munsell_0.4.3 broom_0.4.4 crayon_1.3.4 zoo_1.8-1