regex - Pipe awk's results to sed (deletion) -

regex - Pipe awk's results to sed (deletion) -

i using awk command (someawkcommand) prints these lines (awkoutput):

>genome1 atgcaaaag caataa

and then, want utilize output (awkoutput) input of sed command. that:

someawkcommand | sed 's/awkoutput//g' file1.txt > results.txt

file1.txt:

>genome1 atgcaaaag caataa >genome2 atgaaaaa aaaaaaaa caa >genome3 accc

the final objective delete lines in file (file1.txt) containing exact pattern found awk.

the file results.txt contains (output of sed):

>genome2 atgaaaaa aaaaaaaa caa >genome3 accc

how should write sed command? there simple way sed recognize output of awk input?

using gnu awk multi-char rs:

$ cat file1 >genome1 atgcaaaag caataa $ cat file2 >genome1 atgcaaaag caataa >genome2 atgaaaaa aaaaaaaa caa >genome3 accc $ gawk -v rs='^$' -v ors= 'nr==fnr{rmv=$0;next} {sub(rmv,"")} 1' file1 file2 >genome2 atgaaaaa aaaaaaaa caa >genome3 accc

the stuff might non-obvious newcomers mutual awk idioms:

-v rs='^$' tells awk read whole file 1 string (instead of it's default 1 line @ time). -v ors= sets output record separator null string (instead of it's default newline) when file printed string awk doesn't add together newline after it. nr==fnr status true first input file. 1 true status invoking default action of printing current record.

regex bash awk sed