Error when calling launch_shinystan about shinystan

[jgabry]

Thanks for the reporting the error, and glad you like ShinyStan!

This is a strange error message and I don't know why it would be a problem on Windows. The code

a("Stan Modeling Language User's Guide and Reference Manual", href = "http://mc-stan.org/documentation/")

should produce the html

<a href="http://mc-stan.org/documentation/"> "Stan Modeling Language User's Guide and Reference Manual"</a>

which should just be a hyperlink to the documentation page of the Stan website.

Can you recreate the error and then send the output from running sessionInfo()?

@mhandreae you're on windows right? Have you ever seen an error like this with ShinyStan?

[MGretton]

@jgabry Thanks Jonah. I tried to recreate the error in both the session that produced it previously and in a brand new session. In the new session, it works fine!

Doing sessionInfo () on both shows this:

Session which produces the error:

R version 3.2.2 (2015-08-14)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1

locale:
[1] LC_COLLATE=English_Australia.1252  LC_CTYPE=English_Australia.1252   
[3] LC_MONETARY=English_Australia.1252 LC_NUMERIC=C                      
[5] LC_TIME=English_Australia.1252    

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

other attached packages:
[1] shinystan_2.0.0 shiny_0.12.2    ggplot2_1.0.1   rstan_2.7.0-1  
[5] inline_0.3.14   Rcpp_0.11.6    

loaded via a namespace (and not attached):
 [1] plyr_1.8.3        shinyjs_0.2.0     base64enc_0.1-3   tools_3.2.2      
 [5] xts_0.9-7         digest_0.6.8      gtable_0.1.2      lattice_0.20-33  
 [9] yaml_2.1.13       parallel_3.2.2    proto_0.3-10      gridExtra_2.0.0  
[13] stringr_1.0.0     gtools_3.5.0      dygraphs_0.4.5    htmlwidgets_0.5  
[17] stats4_3.2.2      grid_3.2.2        DT_0.1.12         R6_2.1.1         
[21] rmarkdown_0.7     reshape2_1.4.1    magrittr_1.5      shinythemes_1.0.1
[25] scales_0.3.0      threejs_0.2.1     codetools_0.2-14  htmltools_0.2.6  
[29] MASS_7.3-43       mime_0.4          colorspace_1.2-6  xtable_1.7-4     
[33] httpuv_1.3.3      stringi_0.5-5     munsell_0.4.2     markdown_0.7.7   
[37] zoo_1.7-12 

Session which works:

R version 3.2.2 (2015-08-14)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1

locale:
[1] LC_COLLATE=English_Australia.1252  LC_CTYPE=English_Australia.1252   
[3] LC_MONETARY=English_Australia.1252 LC_NUMERIC=C                      
[5] LC_TIME=English_Australia.1252    

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

other attached packages:
[1] markdown_0.7.7  shinystan_2.0.0 shiny_0.12.2    ggplot2_1.0.1  
[5] rstan_2.7.0-1   inline_0.3.14   Rcpp_0.11.6    

loaded via a namespace (and not attached):
 [1] plyr_1.8.3        base64enc_0.1-3   shinyjs_0.2.0     tools_3.2.2      
 [5] xts_0.9-7         digest_0.6.8      jsonlite_0.9.17   gtable_0.1.2     
 [9] lattice_0.20-33   rstudioapi_0.3.1  yaml_2.1.13       proto_0.3-10     
[13] gridExtra_2.0.0   stringr_1.0.0     dygraphs_0.4.5    htmlwidgets_0.5  
[17] gtools_3.5.0      stats4_3.2.2      grid_3.2.2        DT_0.1.12        
[21] R6_2.1.1          reshape2_1.4.1    magrittr_1.5      scales_0.3.0     
[25] threejs_0.2.1     codetools_0.2-14  htmltools_0.2.6   shinythemes_1.0.1
[29] MASS_7.3-43       mime_0.4          xtable_1.7-4      colorspace_1.2-6 
[33] httpuv_1.3.3      stringi_0.5-5     munsell_0.4.2     zoo_1.7-12 

To my eyes, the only differences above are:

• the addition of markdown_0.7.7 as an attached package in the working session (it's in the 'loaded via namespace' section of the non-working session)
• the addition of jsonlite_0.9.17 in the working session
• the existence of rmarkdown_0.7 in the non-working session
• (presumably irrelevant) parallel_3.2.2 is loaded in the non-working session

I don't know if that helps?

[jgabry]

Well, I'm glad it worked in the new session.

Thanks for sending the details from both sessions. That should help narrow
it down. I haven't quite figured it out yet, but it might be something with
the difference in markdown. Given the other packages listed, I'm not sure
why markdown is just loaded via namespace in the first but attached in the
second. I'll see if I can track down what's going on.

On Sunday, September 13, 2015, Matthew Gretton [email protected]
wrote:

@jgabry https://github.com/jgabry Thanks Jonah. I tried to recreate the
error in both the session that produced it previously and in a brand new
session. In the new session, it works fine!

Doing sessionInfo () on both shows this:

Session which produces the error:

R version 3.2.2 (2015-08-14)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1

locale:
[1] LC_COLLATE=English_Australia.1252 LC_CTYPE=English_Australia.1252
[3] LC_MONETARY=English_Australia.1252 LC_NUMERIC=C
[5] LC_TIME=English_Australia.1252

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

other attached packages:
[1] shinystan_2.0.0 shiny_0.12.2 ggplot2_1.0.1 rstan_2.7.0-1
[5] inline_0.3.14 Rcpp_0.11.6

loaded via a namespace (and not attached):
[1] plyr_1.8.3 shinyjs_0.2.0 base64enc_0.1-3 tools_3.2.2
[5] xts_0.9-7 digest_0.6.8 gtable_0.1.2 lattice_0.20-33
[9] yaml_2.1.13 parallel_3.2.2 proto_0.3-10 gridExtra_2.0.0
[13] stringr_1.0.0 gtools_3.5.0 dygraphs_0.4.5 htmlwidgets_0.5
[17] stats4_3.2.2 grid_3.2.2 DT_0.1.12 R6_2.1.1
[21] rmarkdown_0.7 reshape2_1.4.1 magrittr_1.5 shinythemes_1.0.1
[25] scales_0.3.0 threejs_0.2.1 codetools_0.2-14 htmltools_0.2.6
[29] MASS_7.3-43 mime_0.4 colorspace_1.2-6 xtable_1.7-4
[33] httpuv_1.3.3 stringi_0.5-5 munsell_0.4.2 markdown_0.7.7
[37] zoo_1.7-12

Session which works:

R version 3.2.2 (2015-08-14)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1

locale:
[1] LC_COLLATE=English_Australia.1252 LC_CTYPE=English_Australia.1252
[3] LC_MONETARY=English_Australia.1252 LC_NUMERIC=C
[5] LC_TIME=English_Australia.1252

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

other attached packages:
[1] markdown_0.7.7 shinystan_2.0.0 shiny_0.12.2 ggplot2_1.0.1
[5] rstan_2.7.0-1 inline_0.3.14 Rcpp_0.11.6

loaded via a namespace (and not attached):
[1] plyr_1.8.3 base64enc_0.1-3 shinyjs_0.2.0 tools_3.2.2
[5] xts_0.9-7 digest_0.6.8 jsonlite_0.9.17 gtable_0.1.2
[9] lattice_0.20-33 rstudioapi_0.3.1 yaml_2.1.13 proto_0.3-10
[13] gridExtra_2.0.0 stringr_1.0.0 dygraphs_0.4.5 htmlwidgets_0.5
[17] gtools_3.5.0 stats4_3.2.2 grid_3.2.2 DT_0.1.12
[21] R6_2.1.1 reshape2_1.4.1 magrittr_1.5 scales_0.3.0
[25] threejs_0.2.1 codetools_0.2-14 htmltools_0.2.6 shinythemes_1.0.1
[29] MASS_7.3-43 mime_0.4 xtable_1.7-4 colorspace_1.2-6
[33] httpuv_1.3.3 stringi_0.5-5 munsell_0.4.2 zoo_1.7-12

To my eyes, the only differences above are:

• the addition of markdown_0.7.7 as an attached package in the working
  session (it's in the 'loaded via namespace' section of the non-working
  session)
• the addition of jsonlite_0.9.17 in the working session
• the existence of rmarkdown_0.7 in the non-working session
• (presumably irrelevant) parallel_3.2.2 is loaded in the non-working
  session

I don't know if that helps?

—
Reply to this email directly or view it on GitHub
#93 (comment).

[jgabry]

Hi Matthew, I've tried replicating the error on Windows (with various arrangements of the attached and loaded packages) but I haven't been able to recreate it. It was only in that one session that you got this error, right?