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Full Discussion: Awk script
Top Forums Shell Programming and Scripting Awk script Post 302498163 by shen on Sunday 20th of February 2011 03:41:52 AM
Old 02-20-2011
MySQL Awk script

I have following text
Code:
scaffold_1      phytozome6      gene    12632   13612   .       +       .       ID=PT_0001s00200;Name=PT_0001s00200
scaffold_1      phytozome6      mRNA    12632   13612   .     +       .     ID=PAC:18235173;Name=PT_0001s00200.1;PACid=18235173;Parent=PT_0001s00200
scaffold_1      phytozome6      5'-UTR  12632   12638   .       +       .       Parent=PAC:18235173;PACid=18235173
scaffold_1      phytozome6      CDS     12639   12650   .       +       0      Parent=PAC:18235173;PACid=18235173
scaffold_1      phytozome6      CDS     12768   12891   .       +       0      Parent=PAC:18235173;PACid=18235173
scaffold_1      phytozome6      CDS     13117   13226   .       +       2      Parent=PAC:18235173;PACid=18235173
scaffold_1      phytozome6      CDS     13310   13384   .       +       0      Parent=PAC:18235173;PACid=18235173
scaffold_1      phytozome6      3'-UTR  13385   13612   .       +       .       Parent=PAC:18235173;PACid=18235173

I want convert into
Code:
scaffold_1      phytozome6      gene    12632   13612   .       +       .       ID=PT_0001s00200;Name=PT_0001s00200
scaffold_1      phytozome6      mRNA    12632   13612   .     +       .     ID=PT_0001s00200.1;Name=PT_0001s00200.1;PACid=18235173;Parent=PT_0001s00200
scaffold_1      phytozome6      5'-UTR  12632   12638   .       +       .       Parent=PT_0001s00200.1;PACid=18235173
scaffold_1      phytozome6      CDS     12639   12650   .       +       0      Parent=PT_0001s00200.1;PACid=18235173
scaffold_1      phytozome6      CDS     12768   12891   .       +       0      Parent=PT_0001s00200.1;PACid=18235173
scaffold_1      phytozome6      CDS     13117   13226   .       +       2      Parent=PT_0001s00200.1;PACid=18235173
scaffold_1      phytozome6      CDS     13310   13384   .       +       0      Parent=PT_0001s00200.1;PACid=18235173
scaffold_1      phytozome6      3'-UTR  13385   13612   .       +       .       Parent=PT_0001s00200.1;PACid=18235173

I tried with following script
Code:
awk '{if(substr($9,17,10)=="Name=PT") print gensub("Parent=PAC:"substr($9,47,9),"Parent="substr($9,22,16)".1",
  substr($0,0)) substr($0,0) }' inputfile > outputfile

but still no luck.

Can you please help me,

Last edited by Scott; 02-20-2011 at 05:54 AM.. Reason: Please use code tags
 

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wxPrintDialog(3erl)					     Erlang Module Definition					       wxPrintDialog(3erl)

NAME
wxPrintDialog - See external documentation: wxPrintDialog. DESCRIPTION
See external documentation: wxPrintDialog . This class is derived (and can use functions) from: wxDialog wxTopLevelWindow wxWindow wxEvtHandler DATA TYPES
wxPrintDialog() : An object reference, The representation is internal and can be changed without notice. It can't be used for comparsion stored on disc or distributed for use on other nodes. EXPORTS
new(Parent::wxWindow() (see module wxWindow)) -> wxPrintDialog() Equivalent to new(Parent, []) . new(Parent::wxWindow() (see module wxWindow), X::term()) -> wxPrintDialog() See external documentation . Alternatives: new(Parent::wxWindow:wxWindow(), [Option]) -> wxPrintDialog() Option = {data, wxPrintDialogData:wxPrintDialogData()} new(Parent::wxWindow:wxWindow(), Data::wxPrintData:wxPrintData()) -> wxPrintDialog() getPrintDialogData(This::wxPrintDialog()) -> wxPrintDialogData() (see module wxPrintDialogData) See external documentation . getPrintDC(This::wxPrintDialog()) -> wxDC() (see module wxDC) See external documentation . destroy(This::wxPrintDialog()) -> ok Destroys this object, do not use object again AUTHORS
<> wxErlang 0.98.9 wxPrintDialog(3erl)
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