shinythemes issue - Githubissues

sokoloko commented 7 years ago

Hello @joey711 @spholmes and thank you for phyloseq.

On previous R versions shiny worked, but since I upgraded to R 3.3.1 it doesn't. shinythemes seems to be missing. Is there a solution, please?

Best, Sergios

> shiny::runGitHub("shiny-phyloseq","joey711")
Downloading https://github.com/joey711/shiny-phyloseq/archive/master.tar.gz
Bioconductor version 3.4 (BiocInstaller 1.24.0), ?biocLite for help
Bioconductor version 3.4 (BiocInstaller 1.24.0), ?biocLite for help
Bioconductor version 3.4 (BiocInstaller 1.24.0), ?biocLite for help
Bioconductor version 3.4 (BiocInstaller 1.24.0), ?biocLite for help
The following package is missing.
shinythemes
Installation will be attempted...
Error in match(x, table, nomatch = 0L) : object 'i' not found

> sessionInfo()
R version 3.3.1 (2016-06-21)
Platform: x86_64-apple-darwin13.4.0 (64-bit)
Running under: OS X 10.11.6 (El Capitan)

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] shiny_0.14.1         BiocInstaller_1.24.0 devtools_1.12.0     

loaded via a namespace (and not attached):
 [1] httr_1.2.1      R6_2.2.0        htmltools_0.3.5 tools_3.3.1    
 [5] withr_1.0.2     curl_2.1        Rcpp_0.12.7     memoise_1.0.0  
 [9] git2r_0.15.0    jsonlite_1.1    digest_0.6.10   xtable_1.8-2   
[13] httpuv_1.3.3    mime_0.5

spholmes commented 7 years ago

For some reason, the current version of Shiny-phyloseq doesn't find the packages shinythemes, rmarkdown and network3D Installing these by hand: install.packages("shinythemes") install.packages("networkD3") install.packages("rmarkdown") then rerunning

shiny::runGitHub("shiny-phyloseq","joey711")

joey711 commented 7 years ago

Thanks! I'll take a look and update it

spholmes commented 7 years ago

I'm being picky because I am preparing to show this at NIPS tomorrow in front of 6,000 people, I think I am going to minimovie it rather than crash interactively for such a big crowd...

On Wed, Dec 7, 2016 at 6:54 PM, Paul J. McMurdie notifications@github.com wrote:

Thanks! I'll take a look and update it

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/joey711/shiny-phyloseq/issues/68#issuecomment-265520438, or mute the thread https://github.com/notifications/unsubscribe-auth/ABJcvWrYkCG0NUSQDJUsM853yQI78llBks5rFvLSgaJpZM4Kdkoq .

-- Susan Holmes Professor, Statistics and BioX John Henry Samter Fellow in Undergraduate Education Sequoia Hall, 390 Serra Mall Stanford, CA 94305 http://www-stat.stanford.edu/~susan/

joey711 commented 7 years ago

good idea (minimovie). Not worth the risk.

Btw I have some updates brewing. The new "shiny modules" are a great new addition for complex apps like shiny-phyloseq.

spholmes commented 7 years ago

Well, I wasn't able to make the mini-movie, this old bug with the provenance tracking cam back to haunt me:

Error in which: argument to 'which' is not logical

appears in the white screen when doing the provenance tracking or display code option...

doesn't matter, I'll point to Github and hope we have a fix soon.

On Wed, Dec 7, 2016 at 12:09 PM, Paul J. McMurdie notifications@github.com wrote:

good idea (minimovie). Not worth the risk.

Btw I have some updates brewing. The new "shiny modules" are a great new addition for complex apps like shiny-phyloseq.

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/joey711/shiny-phyloseq/issues/68#issuecomment-265559319, or mute the thread https://github.com/notifications/unsubscribe-auth/ABJcvZWq6ADet-WIRcK_FFnuJVr-tSE0ks5rFxKRgaJpZM4Kdkoq .

-- Susan Holmes Professor, Statistics and BioX John Henry Samter Fellow in Undergraduate Education Sequoia Hall, 390 Serra Mall Stanford, CA 94305 http://www-stat.stanford.edu/~susan/

joey711 / shiny-phyloseq

shinythemes issue #68