Hi,
I seem to have memory issues with the compilation of a bookdown. My book compiles fine if I only include half of my Rmd files. If I include all of them, I get the following message.
Error: pandoc document conversion failed with error 9
A stackoverflow poster provided a way to use pandoc_args to increase stack size when processing a single markdown file (https://stackoverflow.com/questions/25599860/how-to-increase-stack-space-overflow-for-pandoc-in-r)
pandoc_args: [
"+RTS", "-K64m",
"-RTS"
]
What is the proper way to implement this in bookdown?
When I include the pandoc_args in the _output.yml file. The following pandoc command is issued (see the presence of 2 sets of +RTS -Ksize -RTS):
/usr/bin/pandoc +RTS -K512m -RTS _main.utf8.md --to html4 --from markdown+autolink_bare_uris+ascii_identifiers+tex_math_single_backslash+smart --output _main.html --email-obfuscation none --wrap preserve +RTS -K1024m -RTS --standalone --section-divs --table-of-contents --toc-depth 3 --template /usr/lib64/R/library/bookdown/templates/gitbook.html --highlight-style pygments --number-sections --css css/style.css --include-in-header /tmp/RtmpXh83fq/rmarkdown-str1a95fb43246.html --mathjax --filter /usr/bin/pandoc-citeproc
Error: pandoc document conversion failed with error 9
Please delete _main.Rmd after you finish debugging the error.
> sessionInfo()
R version 3.4.3 (2017-11-30)
Platform: x86_64-redhat-linux-gnu (64-bit)
Running under: CentOS Linux 7 (Core)
Matrix products: default
BLAS: /usr/lib64/R/lib/libRblas.so
LAPACK: /usr/lib64/R/lib/libRlapack.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] 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
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] bookdown_0.7
loaded via a namespace (and not attached):
[1] compiler_3.4.3 backports_1.1.2 magrittr_1.5 rprojroot_1.3-2
[5] htmltools_0.3.6 tools_3.4.3 rstudioapi_0.7 yaml_2.1.18
[9] Rcpp_0.12.16 stringi_1.1.7 rmarkdown_1.9 knitr_1.20
[13] stringr_1.3.0 digest_0.6.15 xfun_0.3 evaluate_0.10.1