UNIX for Dummies Questions & Answers

So, I have huge results file and I need to extract two lines, so far I know that these two commands separately do what I need:

grep "Query=" results.out
grep "Sequence" -2 results.out

Now, I have no idea how to concatenate these results together so that every query matches up with their appropriate sequence. So the out put should be like:
Query= blablabla
Sequences bla bla bla:

BLAblabla

any help would be appreciated,
Thanks.

On my system your second "grep" is a syntax error (thinks "-2" is a file).

Anyway, try egrep to extract the lines in the same order as the original file:

Code:

egrep "Query=|Sequence" results.out

the grep "Sequence" -2 results.out ... prints only the second line from Sequence..

the egrep didn't work for me, as in my results file the actual sequence is based two lines after "Sequence".

I was thinking of making a script or something, but the idea died half way through..

If that's not the data you have and not the output you want, show the data you have, and show the output you want. Until you do we're just guessing at what you want.

The data I have is this:

Query= g1.t1 (1079 letters)


Database: Database10
21,546,138 sequences; 7,110,393,968 total letters


Searching..................................................done







Sequences producing significant alignments: Score E (bits) Value


BJgh3579 186 3e-44


>BJgh3579 Length = 1032


Score = 186 bits (472), Expect = 3e-44, Method: Compositional matrix adjust.

.....
So the red lines are the ones I need, I can get them separately by the codes above, but together in line I have no idea how to get them.

You can't tell grep to print a line by matching the line above it. grep has no memory. grep just matches lines.

working on something in awk.

---------- Post updated at 09:32 AM ---------- Previous update was at 09:30 AM ----------

Code:

$ awk '/Query=/;/Sequences/ { getline; while(!$1) getline; print }' < data
Query= g1.t1 (1079 letters)
BJgh3579 186 3e-44
$

Well, some versions do - there are context line control options for printing the lines before or after a matching line.

I don't think you can combine them as the OP would need though (e.g. 'just the matching line for this match, but 2 lines of after context for this one'), so it's probably not useful in this case.