using python variables with bash magic in jupyter

Question

I would like to run bash commands in jupyter notebook using the %%bash magic command and pass python variables. As described in this post I can do this as follows:

%%bash -s {foo} {bar}
cp $1 $2

This works just fine. However, when I have a bunch of these variables and the bash commands are long, it becomes a bit unwieldy to use $1, $2, and so on for arguments. I know that one can use the curly braces notation for line magics as follows:

!cp {foo} {bar}

Is there a comparable way to use the curly brace notation with cell magic? Perhaps something along the lines of:

## in a python cell
foo = 'foo.txt'
bar = 'bar.txt'

## in another cell
%%bash <SOMETHING GOES HERE>
cp {foo} {bar}

UPDATE (04-14-2022): This can be done by defining a new magic as described here.

Are you actually looking for $@ (array of positional args) in bash? — jordanm
– jordanm, Commented Apr 3, 2020 at 16:40
$@ is going to return the entire list of arguments. But what I am interested in is to be able to refer to them using a name instead of numbers. I will edit the question to make it a little more clear. — vkkodali
– vkkodali, Commented Apr 3, 2020 at 18:21
Question answered by @krassowski in the post referred to by the question author (about a year after the question was asked here) TLDR: Basically, you can use Python string templates with braces if you are willing to define new cell magic — Kleber Noel
– Kleber Noel, Commented Apr 13, 2022 at 15:39

Stephen Wood · Accepted Answer · 2021-06-09 21:11:09Z

7

Try

!cp $foo $bar

Without the braces.

answered Jun 9, 2021 at 21:11

Stephen Wood

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