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How to execute the convert-spread3.sh? #1

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virologist opened this issue Jun 4, 2020 · 4 comments
Closed

How to execute the convert-spread3.sh? #1

virologist opened this issue Jun 4, 2020 · 4 comments

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@virologist
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Hi, Terry

Recently, I am trying to use SpreaD3 to interpret the phylogeographic diffusion of flu. I meet as same as the error described in phylogeography/SpreaD3#32. I struggled here for many hours. Then I found your solutions. Very nice. It's relief me. However, I don't know how to use this .sh. Could you please give me some clues?
I try PowerShell on my win 10 and WSL. Neither of them works well.
I put the snapshots of the errors I take.
image
image
image
Thanks a lot!

Best regards,
Yan

@terrycojones
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Hi Yan. I don't use windows, so this may not work. Using WSL is the best option. Try this:

$ mkdir /tmp
$ apt-get install awk sed

You may need to put sudo before that final command, but I don't know if that exists or is needed on windows. Then try re-running.

@virologist
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Thank you very much, Terry. I made it.

$ mkdir tmp
$ sudo apt-get install awk sed
$ bash convert-spread3.sh

@terrycojones
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Great - good on you for digging into this and getting it all the way fixed on your system! That's really nice to hear and you are in a minority! :-) Best of luck with your work.

@virologist
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virologist commented Jun 4, 2020 via email

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