Error deploying to shinyapps.io

josh · 2018-05-04T13:13:55.208Z

It may be some time before the Ubuntu R packages are available on CRAN, from what I can tell by Googling a bit:

https://stat.ethz.ch/pipermail/r-sig-debian/2018-April/002829.html

stackoverflow.com

R 3.5 is not available for linux

r

asked by Edgar Manukyan on 12:03PM - 28 Apr 18 UTC

https://twitter.com/search?q=%40marutterstat&src=typd

For the time being, you would need to downgrade to R 3.4.4 or lower in order to deploy to shinyapps.io

laresbernardo · 2018-05-07T01:19:27.724Z

Any update on this issue? I read up there that it is an Ubuntu delay, but is macOS also "slow" with these updates or are they the same? I am having exactly the same error message on my macOS R 3.5.0

josh · 2018-05-07T12:33:38.469Z

There is no update at this time.
When the 3.5.0 binaries show up here, shinyapps.io will pick them up.
This should have nothing to do with macOS binaries, those are available today. However, shinyapps.io attempts to match the R environment you are running locally, so while R 3.5.0 is available now for macOS and Windows, if you want to deploy to shinyapps.io, you will need to stick with a lower version for the time being.

PLu · 2018-05-07T18:59:38.198Z

Hi,
Same problem BUT I'm using Win10 and R3.5.0 (and RStudio 1.1.447).
Testing shiny based on: http://shiny.rstudio.com/articles/shinyapps.html

"...R 3.5.0 is available now for macOS and Windows..."
Let's ask it other way round: Can anyone confirm it really works with Windows10?

Preparing to deploy application...DONE
Uploading bundle for application: 338746...Detecting system locale ... DONE
Deploying bundle: 1360663 for application: 338746 ...
Waiting for task: 524436297
building: Processing bundle: 1360663
building: Building image: 1373556
error: Building package: rlang
################################ Begin Task Log ################################
################################# End Task Log #################################
Error: Unhandled Exception: Child Task 524436298 failed: Error building image: Error building rlang (0.2.0). R version 3.5.0 currently unavailable
In addition: Warning message:
Error detecting locale: Error in read.table(file = file, header = header, sep = sep, quote = quote, : incomplete final line found by readTableHeader on 'raw'
(Using default: en_US)

sessionInfo()
R version 3.5.0 (2018-04-23)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows >= 8 x64 (build 9200)

josh · 2018-05-07T19:15:11.044Z

shinyapps.io is a Linux environment based on Ubuntu Trusty, as such, support for R 3.5.0 will not be available until the R binaries for Ubuntu Trusty become available, regardless of your local environment having R 3.5.0 due to your running macOS or Windows.

jverce · 2018-05-14T01:09:17.745Z

So if it takes 1 year for Ubuntu to make that version available, then you'll have all your users unable to publish their apps for 1 year? Or make your users use an old version of R?

josh · 2018-05-15T21:29:13.940Z

While I appreciate your frustration here (believe me, it is not fun giving disappointing answers to this same question multiple times a day), I think you are approaching a grey area in the friendliness of the discourse in this community.

If a user must use the latest version of R that just came out, RStudio offers products, both open source and professional, that may be used to host Shiny applications on operating systems other than Ubuntu or with manually built R binaries.

We are investigating options for switching to using our own R binaries so we are not dependent in this way in the future, but there is no time frame that I can communicate at this time.

That said, I do not expect this situation to last a year.

Cheers!

Mikarai · 2018-05-22T10:59:55.885Z

Many thanks for your response and your hard work.

Is there a way to receive a notification when it will be available?

Best regards!

josh · 2018-05-22T12:25:22.787Z

We will post both here on the Community site and on the shinyapps-users Google Group.

pastrami0 · 2018-05-22T12:51:52.000Z

Anything we as the R/shiny community can do to help?

pjo · 2018-05-22T14:53:05.597Z

I believe that my problem is related to this one. The easiest way to understand my problem is click on Home or About. If either case, NOT FOUND is displayed on https://pjossenbruggen.shinyapps.io/gpgithub/.

There is a warning but no errors in R Markdown, Deploy or shinyapps.io logs. library(RJSONIO) and library(shiny) were added to the code to eliminate NAs in earlier runs.

I feel that I must install a package to overcome this issue.

The shinyapps.io log and sessionInfo are:
|
|.................................................................| 100%
2018-05-22T14:26:11.698920+00:00 shinyapps[347050]: output file: /tmp/rmarkdown/f9769c64af1be0032e01d1104b004c4d/index.knit.md
2018-05-22T14:26:11.680904+00:00 shinyapps[347050]:
2018-05-22T14:26:11.698924+00:00 shinyapps[347050]:
2018-05-22T14:26:11.674011+00:00 shinyapps[347050]: ordinary text without R code
2018-05-22T14:26:11.674014+00:00 shinyapps[347050]:
2018-05-22T14:26:11.759437+00:00 shinyapps[347050]: /opt/connect/ext/pandoc/pandoc +RTS -K512m -RTS /tmp/rmarkdown/f9769c64af1be0032e01d1104b004c4d/index.utf8.md --to html4 --from markdown+autolink_bare_uris+ascii_identifiers+tex_math_single_backslash --output /tmp/rmarkdown/f9769c64af1be0032e01d1104b004c4d/rmd_f9769c64af1be0032e01d1104b004c4d.html --smart --email-obfuscation none --standalone --section-divs --template /usr/local/lib/R/site-library/rmarkdown/rmd/h/default.html --no-highlight --variable highlightjs=1 --css style.css --id-prefix section- --include-before-body /tmp/RtmpaOQEIr/rmarkdown-str117b2ff6ad.html --variable navbar=1 --variable body_padding=60 --variable header_padding=65 --variable 'theme:flatly' --mathjax --variable 'mathjax-url:https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML' --filter /opt/connect/ext/pandoc/pandoc-citeproc
2018-05-22T14:26:11.940604+00:00 shinyapps[347050]: Warning in readLines(res_path) :
2018-05-22T14:26:11.940607+00:00 shinyapps[347050]: incomplete final line found on '/tmp/rmarkdown/f9769c64af1be0032e01d1104b004c4d/rmd_f9769c64af1be0032e01d1104b004c4d_files/style.css'
2018-05-22T14:26:11.972655+00:00 shinyapps[347050]:
2018-05-22T14:26:11.972658+00:00 shinyapps[347050]: Output created: /tmp/rmarkdown/f9769c64af1be0032e01d1104b004c4d/rmd_f9769c64af1be0032e01d1104b004c4d.html
2018-05-22T14:26:53.140628+00:00 shinyapps[347050]: Server version: 1.6.2-2
2018-05-22T14:26:53.140656+00:00 shinyapps[347050]: LANG: en_US.UTF-8
2018-05-22T14:26:53.140657+00:00 shinyapps[347050]: R version: 3.4.4
2018-05-22T14:26:53.140658+00:00 shinyapps[347050]: shiny version: 1.1.0
2018-05-22T14:26:53.140659+00:00 shinyapps[347050]: rmarkdown version: 1.9
2018-05-22T14:26:53.140674+00:00 shinyapps[347050]: knitr version: 1.20
2018-05-22T14:26:53.140675+00:00 shinyapps[347050]: jsonlite version: 1.5
2018-05-22T14:26:53.140681+00:00 shinyapps[347050]: RJSONIO version: 1.3.0
2018-05-22T14:26:53.140728+00:00 shinyapps[347050]: htmltools version: 0.3.6
2018-05-22T14:26:53.321391+00:00 shinyapps[347050]: Using jsonlite for JSON processing
2018-05-22T14:26:53.437693+00:00 shinyapps[347050]:
2018-05-22T14:26:53.437700+00:00 shinyapps[347050]: Starting R with process ID: '63'
2018-05-22T14:26:53.513805+00:00 shinyapps[347050]: Listening on http://127.0.0.1:39456
2018-05-22T14:26:53.513802+00:00 shinyapps[347050]:
2018-05-22T14:32:28.336512+00:00 shinyapps[347050]: Server version: 1.6.2-2
2018-05-22T14:32:28.336574+00:00 shinyapps[347050]: R version: 3.4.4
2018-05-22T14:32:28.336572+00:00 shinyapps[347050]: LANG: en_US.UTF-8
2018-05-22T14:32:28.336632+00:00 shinyapps[347050]: RJSONIO version: 1.3.0
2018-05-22T14:32:28.336575+00:00 shinyapps[347050]: shiny version: 1.1.0
2018-05-22T14:32:28.336594+00:00 shinyapps[347050]: rmarkdown version: 1.9
2018-05-22T14:32:28.524711+00:00 shinyapps[347050]: Using jsonlite for JSON processing
2018-05-22T14:32:28.336596+00:00 shinyapps[347050]: knitr version: 1.20
2018-05-22T14:32:28.336678+00:00 shinyapps[347050]: htmltools version: 0.3.6
2018-05-22T14:32:28.336621+00:00 shinyapps[347050]: jsonlite version: 1.5
2018-05-22T14:32:28.648914+00:00 shinyapps[347050]:
2018-05-22T14:32:28.730715+00:00 shinyapps[347050]: Listening on http://127.0.0.1:33493
2018-05-22T14:32:28.648918+00:00 shinyapps[347050]: Starting R with process ID: '161'
2018-05-22T14:32:28.730711+00:00 shinyapps[347050]:

sessionInfo()
R version 3.4.4 (2018-03-15)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS High Sierra 10.13.4

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_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

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

other attached packages:
[1] tinytex_0.5.4 knitr_1.20 RJSONIO_1.3-0 shiny_1.1.0

loaded via a namespace (and not attached):
[1] Rcpp_0.12.17 digest_0.6.15 later_0.7.2 rprojroot_1.3-2 bitops_1.0-6 mime_0.5
[7] R6_2.2.2 xtable_1.8-2 backports_1.1.2 magrittr_1.5 evaluate_0.10.1 stringi_1.2.2
[13] promises_1.0.1 rmarkdown_1.9 tools_3.4.4 stringr_1.3.1 RCurl_1.95-4.10 rsconnect_0.8.8
[19] httpuv_1.4.3 yaml_2.1.19 compiler_3.4.4 htmltools_0.3.6

josh · 2018-05-22T15:47:27.197Z

@pjo your issue is not related, as you are using R 3.4.4.

josh · 2018-05-22T15:48:26.912Z

Our effort to shift to our own R builds is well underway and I expect to be able to give an update later this week. Thank you for the offer of help, though, it is appreciated.

maxheld83 · 2018-05-23T13:46:16.532Z

If you're deploying from Travis CI to shinyapps.io (yes, that's a thing :), remember that you can always hotfix this problem in your .travis.yml:

language: r

r: 
  - 3.4.4
# this makes travis-ci (which runs on ubuntu) use the last available R version.

Full R travis docs here.

Just remember to delete the hard-coded R version once this problem is solved .

Thanks as always to @josh and the entire RStudio team for the amazing work.

sargdavid · 2018-05-25T20:16:03.858Z

I'm working on Windows 7 with R 3.5.0. Same issue:

Preparing to deploy application...DONE
Uploading bundle for application: 349121...DONE
Deploying bundle: 1393581 for application: 349121 ...
Waiting for task: 527859552
  building: Parsing manifest
  building: Building image: 1406952
  error: Installing system dependencies
################################ Begin Task Log ################################ 
################################# End Task Log ################################# 
Error: Unhandled Exception: Child Task 527859557 failed: Error building image: R version 3.5.0 currently unavailable
Execution halted

Is this the same issue or is everything discussed above pertains to Linux distros only?

pastrami0 · 2018-05-25T22:42:55.000Z

Sounds like the same issue. It has to do with the shinyapps.io back end server not having been able to upgrade to 3.5.0.

sargdavid · 2018-05-26T02:08:18.290Z

Thanks Kenneth! i switched back to R 3.4.3, updated/reinstalled a few packages, and published my app to shinyapps.io website. I hope RStudio catches up with R quickly.

neb · 2018-05-27T15:12:34.858Z

As someone else plagued by this issue, thanks @josh for working on it! Looking forward to your updates.

josh · 2018-05-30T19:43:04.009Z

See Update on R 3.5.0 on shinyapps.io

pastrami0 · 2018-06-01T10:48:21.191Z

Thanks @josh!