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Top Forums Shell Programming and Scripting Need awk to extract lines and sort Post 302360862 by genehunter on Sunday 11th of October 2009 01:00:24 AM
Old 10-11-2009
Need awk to extract lines and sort

Hi,
My data looks like this.
Code:
 CHR                           SNP         BP   A1       TEST    NMISS         OR         STAT            P
   0                 SNP_A-8282315          0    2        ADD     1530      1.074       0.7707       0.4409
   0                 SNP_A-8282315          0    2       COV1     1530  1.771e+04        4.764    1.898e-06
   0                 SNP_A-8282315          0    2       COV2     1530  1.513e+04        4.645    3.402e-06
   0                 SNP_A-8282315          0    2       COV3     1530      14.16        1.306       0.1915
   0                 SNP_A-8282315          0    2       COV4     1530      1.264       0.1139       0.9093
   0                 SNP_A-8282315          0    2       COV5     1530      2.389       0.4268       0.6695
   0                 SNP_A-8338258          0    4        ADD     1528     0.9498      -0.6824        0.495
   0                 SNP_A-8338258          0    4       COV1     1528  1.846e+04        4.777    1.783e-06
   0                 SNP_A-8338258          0    4       COV2     1528  1.374e+04          4.6    4.224e-06
   0                 SNP_A-8338258          0    4       COV3     1528      14.82         1.33       0.1836
   0                 SNP_A-8338258          0    4       COV4     1528      1.251       0.1087       0.9134
   0                 SNP_A-8338258          0    4       COV5     1528      2.431       0.4354       0.6633

.
.
  1. I want to extract only lines with "ADD" in col. 5 (TEST).
  2. I want to sort ascending on Col 9 (P). This column as shown above has both regular and scientific formats.
  3. How can I keep the headers of the file intact in the outfile?
What I tried:
Code:
gawk '{if(NR>1 && $5="ADD") {print $0}}' infile>outfile

Everything in col5 is changed to ADD. Smilie

Last edited by genehunter; 10-11-2009 at 02:33 AM.. Reason: spelling ALL to ADD
 

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DPKG-RUBY(1)						      General Commands Manual						      DPKG-RUBY(1)

NAME
dpkg-ruby - Utility to read a dpkg style db file, dpkg-awk clone SYNOPSIS
dpkg-ruby [(-f|--file) filename] [(-d|--debug) ##] [(-s|--sort) list] [(-n|--numeric) list] [(-rs|--rec_sep) ??] '<fieldname>:<regex>' ... -- <out_fieldname> .. DESCRIPTION
dpkg-ruby Parses a dpkg status file(or other similarly formated file) and outputs the resulting records. It can use regex on the field values to limit the returned records, and it can also be told which fields to output. As another option, it can sort the matched fields. OPTIONS
-f filename --file filename The file to parse. The default is /var/lib/dpkg/status. -d [#] --debug [#] Each time this is specified, it increased the debug level. -s field(s) --sort field(s) A space or comma separated list of fields to sort on. -n field(s) --numeric field(s) A space or comma separated list of fields that should be interpreted as numeric in value. -rs ?? --rec_sep ?? Output this string at the end of each output paragraph. -h --help Display some help. fieldname The fields from the file, that are matched with the regex given. The fieldnames are case insensitive. out_fieldname The fields from the file, that are outputted for each record. If the first field listed is begins with ^, then the list that fol- lows are fields NOT to be outputted. BUGS
Be warned that the author has only a shallow understanding of the dpkg packaging system, so there are probably tons of bugs in this pro- gram. This program comes with no warranties. If running this program causes fire and brimstone to rain down upon the earth, you will be on our own. This program accesses the dpkg database directly in places, querying for data that cannot be gotten via dpkg. AUTHOR
Fumitoshi UKAI <ukai@debian.or.jp>. This manual page are based on (or almost copy from :) dpkg-awk(1) manual written by Adam Heath <doo- gie@debian.org> DEBIAN
Debian Utilities DPKG-RUBY(1)
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