Printing file paths using bash

Question

I am a student learning bash. I am currently trying to print a series of absolute file paths to run additional scripts with.

Currently echo $PWD, *In does not work. My file structure looks like.

/home/hayden/myProject/gene

within this directory there are several folders but I am specifically interested in three.

/largeIn/
/mediumIn/
/smallIn/

Within these folders there are differently named files that all end with .fa.

Is there a simple way to extract the files paths to a txt file?

to looks like this

/home/hayden/myProject/gene/largeIn/file.fa
/home/hayden/myProject/gene/mediumIn/file.fa
/home/hayden/myProject/gene/smallIn/file.fa

Thank you

EDIT: @Afle solution was successful.

If the task is not especially using `bash` for this, I'd propose to use the Unix tool `find`: `find /home/hayden/myProject/gene/ -name '*.fa'`. — Alfe, Jul 11 '16 at 19:40
Your question is how to **find** the paths or how to **extract** them? — Ohad Eytan, Jul 11 '16 at 19:41
Thank Alfe. Your solution works! There is so much in the command line tooldbox I had no idea. — Nicholas Hayden, Jul 11 '16 at 19:45

score 1 · Answer 1 · answered Jul 11 '16 at 21:39

Look at the standard Linux find utility. It will be your friend when you are working with any shell, not just bash. It's a general utility for finding files recursively within directories.

In your particular case, you'd do something like :

find /home/hayden/myProject/gene -name '*.fa'

This will find any files under /home/hayden/myProject/gene whose names end with ".fa" (even if they are multiple levels below "gene".

Now, if you know fr a fact that files are exactly where your examples are you could simply use bash's glob'ing and refer to them as :

/home/hayden/myProject/gene/*In/file.fa

Printing file paths using bash

1 Answers1