error creating notebook: path for html_dependency not found

[ChristelSwift]

hi, i'm trying to use notebooks but i've now had the same issue happening several times: when i re-open my project sometimes, and i make a change and try to save/preview, i get this error message:

Error creating notebook: path for html_dependency not found: /var/folders/h8/ <long_code>

The only way to get my notebook to work again has been to delete the project folder, create a new one and re-run everything from scratch. As it's a fairly heavy notebook, this turns out to be very time consuming, and i haven't found any relevant answer to this issue anywhere...

is this a known issue or am i doing something wrong...?

here's my set up chunk:

  {r setup, include=FALSE}
   knitr::opts_chunk$set(
   cache=TRUE, warning=FALSE, 
   message=FALSE, cache.lazy=FALSE) 

System details

RStudio Edition : Desktop
RStudio Version : 1.1.442
OS Version      :  OS X El Capitan
R Version       :  3.4.3

sessionInfo:

R version 3.4.3 (2017-11-30)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: OS X El Capitan 10.11.6

Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libRlapack.dylib

locale:
[1] en_GB.UTF-8/en_GB.UTF-8/en_GB.UTF-8/C/en_GB.UTF-8/en_GB.UTF-8

attached base packages:
[1] stats graphics grDevices utils datasets methods base

other attached packages:
[1] RPostgreSQL_0.6-2 DBI_0.8

loaded via a namespace (and not attached):
[1] zoo_1.8-1 modeltools_0.2-21 coin_1.2-2 splines_3.4.3
[5] lattice_0.20-35 colorspace_1.3-2 htmltools_0.3.6 stats4_3.4.3
[9] yaml_2.1.17 base64enc_0.1-3 survival_2.41-3 rlang_0.2.0
[13] R.oo_1.21.0 pillar_1.2.1 R.utils_2.6.0 gdtools_0.1.7
[17] uuid_0.1-2 multcomp_1.4-8 plyr_1.8.4 stringr_1.3.0
[21] munsell_0.4.3 gtable_0.2.0 R.methodsS3_1.7.1 zip_1.0.0
[25] htmlwidgets_1.0 mvtnorm_1.0-7 codetools_0.2-15 evaluate_0.10.1
[29] knitr_1.20 strucchange_1.5-1 TH.data_1.0-8 ggiraph_0.4.2
[33] Rcpp_0.12.15 party_1.2-4 scales_0.5.0 backports_1.1.2
[37] jsonlite_1.5 gridExtra_2.3 ggplot2_2.2.1 digest_0.6.15
[41] stringi_1.1.6 grid_3.4.3 rprojroot_1.3-2 tools_3.4.3
[45] sandwich_2.4-0 magrittr_1.5 lazyeval_0.2.1 tibble_1.4.2
[49] MASS_7.3-49 Matrix_1.2-12 xml2_1.2.0 rvg_0.1.8
[53] rmarkdown_1.9 officer_0.2.2 R6_2.2.2 rpart_4.1-13
[57] compiler_3.4.3

[ronblum]

@ChristelSwift I'm unable to reproduce the problem, even with the set up chunk you've provided. Can you provide a reproducible sample notebook file?

[ChristelSwift]

Unfortunately I can’t as the problem is intermittent and only happens when I re open the project. Could it be something to do with when I make a copy of the project folder to another location, eg when I save a back up folder in Dropbox? Is it possible that this would mess up the hidden folders for instance?

…

Sent from my iPhone On 29 Mar 2018, at 20:36, Ron Blum <notifications@github.com<mailto:notifications@github.com>> wrote: @ChristelSwift<https://github.com/ChristelSwift> I'm unable to reproduce the problem, even with the set up chunk you've provided. Can you provide a reproducible sample notebook file? — You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub<#2535 (comment)>, or mute the thread<https://github.com/notifications/unsubscribe-auth/AXTjJCfr6Ya-_mSwHAZ1NV3MWPX7u8hMks5tjTergaJpZM4S_9_9>.

[ChristelSwift]

@ronblum could it be related to this issue that was reported by Hadley? rstudio/bookdown#15

[dbrookeUAB]

@ChristelSwift I had a similar error:

path for html_dependency not found:,

and I was able to fix it by deleting the cached folder. I think the problem arises when you set knitr::opts_chunk$set( cache = TRUE) and then move the folder, which is probably why it happens intermittently for you.

[jmcphers]

We now provide a way to clear the cache to resolve this issue:

[Leran10]

Hi, I'm trying to render a Rmarkdown file in linux and eventually I want it to generate a dynamic .html file for people to checkout. The command I'm using is
R -e "rmarkdown::render('./test_rshiny2.Rmd',output_file='./results/Diagnos_Plot.html')".
However I kept getting this error:
Error: path for html_dependency not provided.

Can anyone here provide some help?
Thanks so much!!

[dbrookeUAB]

I would submit this to StackOverflow as well. You'll likely get a faster response.

[Leran10]

Thank you @dbrookeUAB for the advice! Posted.