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martaint / InterCellar

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Browser not available on Intercellar through docker #2

Closed Yoshi-MutoLab closed 2 years ago

Yoshi-MutoLab commented 2 years ago

Hi,

Thank you for developing and publishing a tool which will be very useful for visualization of cell-cell communications. I have encountered an error when I tried the package through docker:

Error in utils::browseURL(appUrl) : 'browser' must be a non-empty character string

options(browser="firefox") InterCellar::run_app( reproducible = TRUE )

Listening on http://127.0.0.1:6716 sh: firefox: command not found

I would be grateful and also it would be more user-friendly if you could show how to visualize with google chrome or safari on the tutorial.

Thanks, Yoshi

martaint commented 2 years ago

Hi and thank you for trying out InterCellar! :)

Uhm could you please try either of these alternatives:

options(browser = "/usr/bin/open -a '/Applications/Google Chrome.app'") options(browser = "/usr/bin/open -a '/Applications/Safari.app'")

Hope it would work out!

Best, Marta

Yoshi-MutoLab commented 2 years ago

Thank you for your quick response ! Unfortunately they did not work...Maybe not the problem of InterCellar itself but probably related to docker or mac though... Do you have any ideas how to deal with this problem?

Thanks, Yoshi

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options(browser = "/usr/bin/open -a '/Applications/Google Chrome.app'") InterCellar::run_app( reproducible = TRUE )

Listening on http://127.0.0.1:7973 sh: /usr/bin/open: No such file or directory

options(browser = "/usr/bin/open -a '/Applications/Safari.app'") InterCellar::run_app( reproducible = TRUE )

Listening on http://127.0.0.1:7973 sh: /usr/bin/open: No such file or directory

martaint commented 2 years ago

Hi,

unfortunately I could not find any other solution :( I guess you tried this already, but what happens if you don't run the options(...) and simply try with InterCellar::run_app( reproducible = TRUE ) ?

Sorry I don't have access to a mac and I cannot reproduce this error on my linux/windows :(

Yoshi-MutoLab commented 2 years ago

Thanks Marta, maybe the problem is related to Mac, and we will use it on windows - Anyway, thank you very much and good luck !