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Re^2: sorting a file - multilevel

by ini2005 (Novice)
on Jun 14, 2008 at 10:08 UTC ( [id://692067]=note: print w/replies, xml ) Need Help??


in reply to Re: sorting a file - multilevel
in thread sorting a file - multilevel

Yes, the 10th col is UTR but it varies, ti can be GENE, CDS, RNA..

another problem is that I need GENE to always be first (not regular lexicographic sort)

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Re^3: sorting a file - multilevel
by runrig (Abbot) on Jun 25, 2008 at 20:34 UTC
    another problem is that I need GENE to always be first (not regular lexicographic sort)
    That's doable...here's a sample (the sed and awk can easily be replaced by perl...left as an exercise):
    #!/bin/ksh

awk 'BEGIN {
  SORTCD["GENE"] = 1
  SORTCD["CDS"]  = 2
  SORTCD["RNA"]  = 3
}
{ print SORTCD[$3], $0 }' <<EOT |
1 1 RNA
1 1 GENE
1 2 CDS
EOT
sort -n -k2,3 -k1,1 | sed -e 's/^[0-9]* //'

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