Error when using deployApp() -- Error in description$Priority

[baldw...@gmail.com]

I am attempting to deploy an app. Everything works as expected when I run it locally. I followed the instructions at:

https://github.com/rstudio/shinyapps/blob/master/guide/guide.md

for configuring my account and getting prepped to deploy my app.

When use the deployApp() function, I get the following error:

deployApp()

Preparing to deploy application...

Update application currently deployed at

http://psychstatistics.shinyapps.io/ma_shiny? [Y/n] 

DONE

Uploading application bundle...

Error in description$Priority : $ operator is invalid for atomic vectors

In addition: Warning message:

In utils::packageDescription(pkg) : no package 'BH' was found

I've googled for help on this error but haven't been able to locate anything. I've attached my server.R and ui.R files. Please let me know if you need anything else. I appreciate your help! My session info is below my signature.

Best,

Scott Baldwin

sessionInfo()

R version 3.0.2 (2013-09-25)

Platform: x86_64-apple-darwin10.8.0 (64-bit)

locale:

[1] en_US.UTF-8/C/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] shinyapps_0.2

loaded via a namespace (and not attached):

[1] digest_0.6.4   RCurl_1.95-4.1 RJSONIO_1.0-3  tools_3.0.2   

[Andy Kipp]

Scott,

Can you send the output of:

shinyapps::appDependencies()

Thanks

-Andy

[Andy Kipp]

Scott,

I think the issue here is that you do not have the 'BH' package installed, even though the 'dplyr' package depends on it.

I would installed that package and try again.

Also, I've pushed a change to shinyapps package that should improve the error message in this case.

-Andy

[baldw...@gmail.com]

You bet:

shinyapps::appDependencies()

        package version

1         shiny   0.8.0

2       foreign  0.8-57

3         dplyr     0.1

4       metafor   1.9-2

5       ggplot2 0.9.3.1

6     gridExtra   0.9.1

7        xtable   1.7-1

8         stats   3.0.2

9         tools   3.0.2

10        utils   3.0.2

11      methods   3.0.2

12       httpuv   1.2.1

13      caTools    1.16

14      RJSONIO   1.0-3

15       digest   0.6.4

16       bitops   1.0-6

17         Rcpp  0.10.6

18   assertthat     0.1

19           BH    <NA>

20      Formula   1.1-1

21         plyr     1.8

22         grid   3.0.2

23       gtable   0.1.2

24     reshape2   1.2.2

25       scales   0.2.3

26        proto  0.3-10

27         MASS  7.3-29

28    grDevices   3.0.2

29     graphics   3.0.2

30      stringr   0.6.2

31      lattice 0.20-24

32 RColorBrewer   1.0-5

33    dichromat   2.0-0

34      munsell   0.4.2

35     labeling     0.2

36   colorspace   1.2-4

Warning message:

In utils::packageDescription(dep, fields = "Version") :

  no package 'BH' was found

[Andy Kipp]

Scott,

See my previous note. In the list below that the BH package is missing for some reason. Install that and re-deploy.

-Andy

[baldw...@gmail.com]

Thanks for your help. I installed the BH package. Now I don't get the same error but get the following error:

Error: Unhandled Exception: Child Task 26317 error: Unhandled Exception: Invalid control character at: line 732 column 8 (char 46564)

I don't have a file in the app with 732 lines, so I wasn't sure where to look to fix this particular error.

Best,

Scott

[Andy Kipp]

Scott,

It looks like there is a strange file called "Icon^M" in your application directory with an invalid character in its name. Is this file necessary? If it is, can you rename it to something else without the control character in is name?

-Andy

[baldw...@gmail.com]

Hi Andy,

Got rid of the Icon? file in my directory (I'm not even sure what the file was -- it was a hidden file so I didn't realize it was there). Getting closer. Running into one more problem (see error below). Seems like another problem related to dplyr. 

 Incidentally, is there anyway that I could have figured out the problem with the Icon file from the error message (for debugging purposes on my end?

Many thanks.

Best,

Scott

 

> deployApp()

Preparing to deploy application...

Update application currently deployed at

http://psychstatistics.shinyapps.io/ma_shiny? [Y/n] y

DONE

Uploading application bundle...DONE

Deploying application...

Waiting for task: 26318

  building: Processing Bundle Id: 12162

  building: Parsing manifest

  building: Building 29 packages

  building: Building package stringr-0.6.2

  building: Building package xtable-1.7-1

  building: Building package labeling-0.2

  building: Building package plyr-1.8

  building: Building package RColorBrewer-1.0-5

  building: Building package proto-0.3-10

  building: Building package dichromat-2.0-0

  building: Building package bitops-1.0-6

  building: Building package caTools-1.16

  building: Building package digest-0.6.4

  building: Building package Formula-1.1-1

  building: Building package metafor-1.9-2

  building: Building package assertthat-0.1

  building: Building package BH-1.51.0-4

  building: Building package gtable-0.1.2

  building: Building package gridExtra-0.9.1

  building: Building package lattice-0.20-24

  building: Building package reshape2-1.2.2

  building: Building package MASS-7.3-29

  building: Building package colorspace-1.2-4

  building: Building package munsell-0.4.2

  building: Building package scales-0.2.3

  building: Building package RJSONIO-1.0-3

  building: Building package ggplot2-0.9.3.1

  building: Building package Rcpp-0.10.6

  building: Building package httpuv-1.2.1

  building: Building package foreign-0.8-57

  building: Building package shiny-0.8.0

  building: Building package dplyr-0.1

Error: Unhandled Exception: Child Task 26319 error: Unhandled Exception: Child Task 26348 error: Unhandled Exception: HTTP 599: Timeout

Best,

Scott

[baldw...@gmail.com]

I just wanted to quickly follow-up on this because I need to get the app deployed for our research group. Is 'dplyr' the hang-up here? Would I be better off trying to figure out my own installation of Shiny Server? 

I really appreciate the support. I've enjoyed the software very much.

Best,

Scott

[Andy Kipp]

Scott,

I dont think dplyr should be an issue. The timeout error you got may of been a temporary error/bug. I would try to do deployApp() again and let me know the result.

Thanks,

-Andy

[baldw...@gmail.com]

Hi Andy,

Thanks. I ran deployApp() again (twice, just in case) and got the timeout error (see below). Thoughts?

Best,

Scott

> deployApp()

Preparing to deploy application...

Update application currently deployed at

http://psychstatistics.shinyapps.io/ma_shiny? [Y/n] y

DONE

Uploading application bundle...DONE

Deploying application...

Waiting for task: 26763

  building: Parsing manifest

  building: Building 1 packages

  building: Building package dplyr-0.1

Error: Unhandled Exception: Child Task 26764 error: Unhandled Exception: Child Task 26765 error: Unhandled Exception: HTTP 599: Timeout

In addition: There were 28 warnings (use warnings() to see them)

> deployApp()

Preparing to deploy application...

Update application currently deployed at

http://psychstatistics.shinyapps.io/ma_shiny? [Y/n] y

DONE

Uploading application bundle...DONE

Deploying application...

Waiting for task: 26766

  building: Processing Bundle Id: 12214

  building: Parsing manifest

  building: Building 1 packages

  building: Building package dplyr-0.1

Error: Unhandled Exception: Child Task 26767 error: Unhandled Exception: HTTP 599: Timeout

In addition: There were 28 warnings (use warnings() to see them)

> warnings()

Warning messages:

1: invalid uid value replaced by that for user 'nobody'

2: invalid gid value replaced by that for user 'nobody'

[Andy Kipp]

Scott,

I'll look into this further and let you know what I find.

-Andy

[Andy Kipp]

Scott,

I may of found an issue that we preventing you from deploying your app. Can you try again and let me know how it goes?

Thanks

-Andy

[baldw...@gmail.com]

Hi Andy,

Getting a different error this time. Thanks for your help.

Best,

Scott

> deployApp()

Preparing to deploy application...

Update application currently deployed at

http://psychstatistics.shinyapps.io/ma_shiny? [Y/n] y

DONE

Uploading application bundle...DONE

Deploying application...

Waiting for task: 26957

  building: Building image: 12139

  building: Building package: digest (0.6.3)

  building: Building package: lattice (0.20-23)

  building: Building package: Rcpp (0.10.5)

  building: Building package: httpuv (1.2.1)

  building: Building package: foreign (0.8-59)

  building: Building package: dplyr (0.1.1)

Error: Unhandled Exception: Child Task 26958 error: Unhandled Exception: Error building dplyr (0.1.1). Build exited with non-zero status: 1

[Andy Kipp]

According to the build log output:

Error: package 'Rcpp' 0.10.5 was found, but >= 0.10.6 is required by 'dplyr'

Which is interesting because ShinyApps uses whatever versions are installed on your system. And you say that things are working correclty when you use runApp().

Can you send the output of:

packageDescription('dplyr')

Thanks,

-Andy

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[baldw...@gmail.com]

Hmm...yes everything works great when I use runApp(). I will update Rcpp and see what happens. In the mean time, here's the output you requested:

> packageDescription('dplyr')

Package: dplyr

Type: Package

Title: dplyr: a grammar of data manipulation

Version: 0.1.1

Author: Hadley Wickham <h.wi...@gmail.com>, Romain Francois

         <rom...@r-enthusiasts.com>

Maintainer: Hadley Wickham <h.wi...@gmail.com>

Description: A fast, consistent tool for working with data frame like objects,

         both in memory and out of memory.

Depends: R (>= 3.0.2)

Imports: assertthat, utils, methods, Rcpp

Suggests: hflights, RSQLite, RSQLite.extfuns, RMySQL, RPostgreSQL, data.table,

         bigrquery, testthat, Lahman, knitr, microbenchmark, ggplot2, mgcv

VignetteBuilder: knitr

LazyData: yes

LinkingTo: Rcpp (>= 0.10.6), BH (>= 1.51.0-2)

License: MIT + file LICENSE

Collate: 'RcppExports.R' 'all-equal.r' 'bench-compare.r' 'chain.r' .....

Packaged: 2014-01-29 19:33:59 UTC; hadley

NeedsCompilation: yes

Repository: CRAN

Date/Publication: 2014-01-29 21:24:54

Built: R 3.0.2; x86_64-apple-darwin10.8.0; 2014-01-30 09:18:19 UTC; unix

[baldw...@gmail.com]

Updating Rcpp fixed it and it is working now. Would a take home be to make sure all dependencies are updated prior to deploying, even if it is working locally?

Thanks so much for your help. Exciting to see it working. Again thanks!

Best,

Scott

[Andy Kipp]

Scott,

It seems strange that dplyr says it depends on Rcpp >= 0.10.6, but looks like it works with 0.10.5 on your machine. Either way, I'm glad to hear it's working. Please reach out if you run into further issues.

-Andy

To view this discussion on the web visit https://groups.google.com/d/msgid/shinyapps-users/344bc6cb-c68c-4945-9113-ec2b6251b21a%40googlegroups.com.

[Tareef Kawaf]

I think there was a big change pushed out to rcpp in the past day or two which will ultimately require reloading all packages that rely on rcpp.  

On Tue, Feb 4, 2014 at 12:28 PM, <baldw...@gmail.com> wrote:

To view this discussion on the web visit https://groups.google.com/d/msgid/shinyapps-users/344bc6cb-c68c-4945-9113-ec2b6251b21a%40googlegroups.com.