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Full Discussion: Grepping one file column from another file
Top Forums Shell Programming and Scripting Grepping one file column from another file Post 302881098 by newbie83 on Thursday 26th of December 2013 02:51:44 PM
Old 12-26-2013
Can you let me know what I`m doing wrong, this is part of a real data-set where I`m trying to search col2 from file1 in col5 in file2.

File2
Code:
# cat inp2.txt
Q0UR51  Q0UR51_PHANO    5973037 XP_001796160.1  111065707: 169605479            GO:0004190; GO:0006508          UniRef100_Q0UR51        UniRef90_Q0UR51 UniRef50_N4XCZ1 UPI0000DD11E3           321614                  18024570        CH445332     EAT86827.1

Code:
# cat inp1.txt
comp100008_c0_seq1      169605479
comp1001565_c0_seq1     326493850
comp10017_c0_seq1       399172251
comp10020_c0_seq1       322703447
comp100416_c0_seq1      115471291
comp10045_c0_seq1       473789509
comp1007987_c0_seq1     357112415
comp100803_c0_seq1      475610100
comp10090_c0_seq1       322706779
comp1009402_c0_seq1     326510337

Code:
# awk  -F"\t" 'FNR==NR{A[$5]=$0;next}{x=0;for(i in A){split(A[i],X,":");if($2==X[2]){x=1;print $0,A[i];next}}if(x==0)print}' inp2.txt inp1.txt
comp100008_c0_seq1      169605479
comp1001565_c0_seq1     326493850
comp10017_c0_seq1       399172251
comp10020_c0_seq1       322703447
comp100416_c0_seq1      115471291
comp10045_c0_seq1       473789509
comp1007987_c0_seq1     357112415
comp100803_c0_seq1      475610100
comp10090_c0_seq1       322706779
comp1009402_c0_seq1     326510337

 

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LEARN ABOUT DEBIAN

update-metainit

UPDATE-METAINIT(1)					User Contributed Perl Documentation					UPDATE-METAINIT(1)

NAME

       update-metainit - Generates init scripts

SYNOPSIS

       update-metainit [--remove initname [--purge] ]

DESCRIPTION

       Metainit solves the problem of writing good init scripts. Instead of manually creating these important files, they are derived from a
       declaritive description in the metainit files in /etc/metainit. These files can be shipped with packages or created by the local adminis-
       trator.

       If update-metainit called without argument, it will regenerate init scripts for all the files in /etc/metainit. The generated files contain
       a large warning in form of a comment that they will be overridden. Modifications are preferably done in the files in /etc/metainit and made
       effective by running update-metainit. If needed, the administrator can prevent modified init files by removing the warning comment.

OPTIONS

       --remove initname
	   This command will remove any generated and non-modified scripts that were created by the metainit file with the name initname.

       --purge
	   Only usable with --remove. Will remove the generated files even if modified.

SEE ALSO

       dh_metainit(1)

AUTHOR

       Joachim Breitner <nomeata@debian.org>

perl v5.8.8							    2007-07-30							UPDATE-METAINIT(1)
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