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Operating Systems Linux Ubuntu Piping with grep
# 1  
Old 06-09-2011
Piping with grep

Hi everybody,

I have a big file with blast results (if you know what this means, otherwise look at it just as a text file with a specific form).

I am trying to extract some ids from within this file, which have certain parameters.
For example, some Of my IDs have the term 'No hit results' connected to them.
This is what I am trying to extract.
this is how it looks loike:
Code:
Query= ssc-miR-345-3p_st

Length=21

RID: 1307544734-17235-35154543375.BLASTQ1

***** No hits found *****

Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.37    0.711     1.31 

Effective search space used: 0

In the complete file I have 15517 'Query=' and for 389 of them I can also find 'No hits found'.

My Qeustion is how can I found out which Queries are connected to this 'No hits'.

I tried it with :
Code:
split -a 5 -p '/Query=' filename

grep -lr 'No' . | grep 'Query='

But this doesn't work.

I just don't understand how to grep in many files and than pipe it to a second grep option.

I would be happy for any help.
Thanks

Assa
# 2  
Old 06-09-2011
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