I would like to remove characters from a specific point until just before the first whitespace (without removing the whitespace itself). For instance, my file.txt is as follows: -
>DN256845_c2_g1_i1 len=56274 ACGGAGG
>DN256532_c0_g2_i19 len=23973 AATACTC
>DN256979_c8_g3_i32 len=16728 CGAAACT
'X' are numbers such as 1 or 19 or 32 and I would like it to be: -
>DN256845_c2_g1 len=56274 ACGGAGG
>DN256532_c0_g2 len=23973 AATACTC
>DN256979_c8_g3 len=16728 CGAAACT
I had used sed 's/_i.*//'
but it removed everything after _i
. Other codes that I had tried were sed 's/_i.*\\./\\ /g'
, sed -E 's/_i.*+[^[: :]]//g'
which ended-up with nothing changed.
How do I solve this using sed/awk or any other approach? I appreciate the help. Thanks!
EDIT: As suggested by Sundeep, I edited the problems for ease of understanding. This data are actually Trinity transcripts identifier. I need to remove the identifier (_i1 and so on) for some analysis).
In awk:
$ awk '{sub(/_[^_ ]+ /," ")}1' file
>DN256845_c2_gXX len=56274 ACGGAGG
>DN256532_c0_gXX len=23973 AATACTC
>DN256979_c8_gXX len=16728 CGAAACT
Same with sed
:
$ sed 's/_[^_ ]\+ / /' file
Replace the first instance of an underscore, everything but an underscore or a space and a space with a space.
Edit: I wonder why I didn't post this obvious awk manipulating the end of $1:
$ awk '{sub(/_[^_]+$/,"",$1)}1' file
'X' are numbers such as 1 or 19 or 32
It is a good idea to give sample as close as possible to real use case. I've changed sample data to change X
after i
to numbers.. if this doesn't help, please add better sample to question
$ cat ip.txt
>DN256845_c2_gXX_i1 len=56274 ACGGAGG
>DN256532_c0_gXX_i19 len=23973 AATACTC
>DN256979_c8_gXX_i32 len=16728 CGAAACT
$ sed 's/_i[0-9]* / /' ip.txt
>DN256845_c2_gXX len=56274 ACGGAGG
>DN256532_c0_gXX len=23973 AATACTC
>DN256979_c8_gXX len=16728 CGAAACT
_i[0-9]*
match _
followed by zero or more numbers followed by space For this use case, this could also be shortened to
sed 's/_i[^ ]*//' ip.txt
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