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Full Discussion: Grep Problem
Top Forums UNIX for Dummies Questions & Answers Grep Problem Post 302932259 by kleinstadt on Tuesday 20th of January 2015 09:36:56 AM
Old 01-20-2015
Grep Problem
Dear all,
my question is about grep.

i have two files.

the first one is a list with ids (line number 188) like this:
Code:
comp10045_c0_seq1
comp10118_c0_seq1
comp10221_c0_seq2
comp10503_c0_seq1
comp10504_c0_seq1
comp10504_c0_seq2
comp10631_c0_seq1
comp10631_c0_seq2
comp10646_c0_seq1
comp10804_c0_seq1

the second file is a tab seperated table (line number 329) , like this:
Code:
comp10045_c0_seq1    tr|Q6PBS3|Q6PBS3_DANRE    79.31    464    93    1    2024    633    2    462    0.0     776
comp10118_c0_seq1    tr|Q6P0C4|Q6P0C4_DANRE    44.19    43    23    1    1066    1194    177    218    0.29    35.4
comp10221_c0_seq2    tr|Q7T340|Q7T340_DANRE    95.05    303    15    0    175    1083    1    303    0.0     543
comp10503_c0_seq1    tr|F1Q9U6|F1Q9U6_DANRE    69.07    472    142    2    2330    915    1    468    0.0     687
comp10504_c0_seq1    tr|F8W2T4|F8W2T4_DANRE    98.01    151    3    0    787    1239    6    156    2e-99     307
comp10504_c0_seq2    tr|F8W2T4|F8W2T4_DANRE    98.01    151    3    0    1095    1547    6    156    2e-98     307
comp10631_c0_seq1    tr|B0S5C5|B0S5C5_DANRE    90.61    394    37    0    145    1326    1    394    0.0     687
comp10631_c0_seq2    tr|B0S5C5|B0S5C5_DANRE    90.61    394    37    0    145    1326    1    394    0.0     687
comp10646_c0_seq1    tr|F1QDS2|F1QDS2_DANRE    84.82    850    110    7    173    2695    1    840    0.0    1333
comp10804_c0_seq1    tr|Q7ZUP6|Q7ZUP6_DANRE    93.58    452    26    2    156    1511    1    449    0.0     851
comp10991_c1_seq1    tr|E7F8T6|E7F8T6_DANRE    94.21    484    28    0    1974    523    9    492    0.0     943

i want to grep the lines of the second file which have the same ids of the first file using the following code:
Code:
 grep -f file1 file2 > output

but it does not work cause i have 329 lines instead of 188.

Can anybody explain what i am doing wrong?

Regards
 

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LEARN ABOUT MINIX

zgrep

ZGREP(1)                                                      General Commands Manual                                                     ZGREP(1)

NAME

       zgrep - search possibly compressed files for a regular expression

SYNOPSIS

       zgrep [ grep_options ] [ -e ] pattern filename...

DESCRIPTION

       Zgrep  invokes  grep  on  compressed  or  gzipped  files.   These  grep  options  will  cause  zgrep  to  terminate  with  an  error  code:
       (-[drRzZ]|--di*|--exc*|--inc*|--rec*|--nu*).  All other options specified are passed directly to grep.  If no file is specified,  then  the
       standard input is decompressed if necessary and fed to grep.  Otherwise the given files are uncompressed if necessary and fed to grep.

       If the GREP environment variable is set, zgrep uses it as the grep program to be invoked.

EXIT CODE

       2 - An option that is not supported was specified.

AUTHOR

       Charles Levert (charles@comm.polymtl.ca)

SEE ALSO

       grep(1), gzexe(1), gzip(1), zdiff(1), zforce(1), zmore(1), znew(1)

                                                                                                                                          ZGREP(1)
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