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akoyabio / phenoptrReports

Create analysis reports from inForm data.
https://akoyabio.github.io/phenoptrReports
zlib License
15 stars 7 forks source link

Error when trying to select files #8

Closed AbbyKimball closed 5 years ago

AbbyKimball commented 5 years ago

Hello! I'm having an issue with the shinyapp, when I try to import my files it crashes and I am given this error:

Listening on http://127.0.0.1:4644
Warning: Error in : 'choose.dir' is not an exported object from 'namespace:utils'
  79: stop
  78: getExportedValue
  77: ::
  74: observeEventHandler
   3: shiny::runApp
   2: shiny::runGadget
   1: phenoptrReports:::addin_10_merge

Thanks!

AB-Kent commented 5 years ago

I see that choose.dir() is Windows-specific. Are you running on Windows?

AbbyKimball commented 5 years ago

Nope, I am doing this on a mac. Please note that I didn't run the command 'choose.dir' this is just the error I get after the shinyapp crashes. For example, I select "Addins > Merge inForm Data" and then the pop out window appears, I select "browse input" to grab my files of interest and then the popout crashes the error above appears.

AB-Kent commented 5 years ago

choose.dir() is used by the addin. I didn't realize it was Windows-specific. I need to replace both choose.dir() and choose.files() :-/

AbbyKimball commented 5 years ago

Let me know when you think it will be working! I'm almost done putting together a manuscript and I'd love to add something about phenoptrReports! Thanks!

AB-Kent commented 5 years ago

Should be fixed now in the development build. To use it, you will also need the dev build of phenoptr. Install both with

devtools::install_github('akoyabio/phenoptr@9000')
devtools::install_github('akoyabio/phenoptrReports@9000')

Let me know if it works, I don't have a Mac to test on.

AbbyKimball commented 5 years ago

Fantastic! So now the Addin "merge cell seg files" works perfectly well, but I am still getting the same error when I try the other Addin options (ex: consolidate and summarize).

Whatever you did worked it just seems like it has to be applied for all functions.

Thanks!

AB-Kent commented 5 years ago

Can you try restarting RStudio? I did change the other addins. If that doesn't work, please post the complete error message. Thanks!

AbbyKimball commented 5 years ago

I just tried restarting and I'm still having the issue with the "consolidate and summarize" option.

Here is the error :)

Listening on http://127.0.0.1:3113 Warning: Error in : 'Filters' is not an exported object from 'namespace:utils' 79: stop 78: getExportedValue 77: :: 74: observeEventHandler 3: shiny::runApp 2: shiny::runGadget 1: phenoptrReports:::addin_20_consolidate

Thank you!

AB-Kent commented 5 years ago

Please re-install phenoptrReports and try again. devtools::install_github('akoyabio/phenoptrReports@9000')

AB-Kent commented 5 years ago

@AbbyKimball Is this fixed for you now?

jpo-costa commented 1 year ago

I have the same error and I did install devtools::install_github('akoyabio/phenoptrReports@9000')