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Full Discussion: awk logic and math help
Top Forums UNIX for Dummies Questions & Answers awk logic and math help Post 302579486 by wyarosh on Monday 5th of December 2011 08:15:52 PM
Old 12-05-2011
awk logic and math help

Hi,

My file has 2 fields and millions of lines.
Code:
variableStep chrom=Uextra span=25
201     0.5952
226     0.330693
251     0.121004
276     0.0736858
301     0.0646982
326     0.0736858
401     0.2952
426     0.230693
451     0.221004
476     0.2736858

Each field either has a header (variableStep . . . .) or 2 fields, one is a coordinate (each coordinate is 25 greater than the previous) and the other is a value associated with it. Notice how the values start at 201, that is because the program I used doesn't output coordinates ($1) with 0 for the second ($2) value. I'm writing a program which is supposed to take the file and insert coordinates and zero's in the gaps, starting at zero.

So far my program looks like this....
Code:
echo Enter the name of the file without the .wig
read NAME
echo Thanks, inserting zeros
awk -v cord=$cord '{if($1 == "variableStep") {cord = 1;{print $0}} else {if ($1 != cord) {print cord "\t" 0} else {print $1 "\t" $2} {cord += 25}}}' ${NAME}.wig > ${NAME}zeros.wig

and I end up with
Code:
variableStep chrom=Uextra span=25
1       0
26      0
51      0
76      0
101     0
126     0
151     0
176     0
201     0
226     0
251     0

What I want the program to do is output
Code:
variableStep chrom=Uextra span=25
1       0
26      0
51      0
76      0
101     0
126     0
151     0
176     0
201     0.5952
226     0.330693
251     0.121004
276     0.0736858
301     0.0646982
326     0.0736858
351     0
376     0
401     0.2952
426     0.230693
451     0.221004
476     0.2736858

I can do this in excel, but it takes forever.... please help!

Thanks

Moderator's Comments:
Mod Comment How to use code tags

Last edited by Franklin52; 12-07-2011 at 05:29 AM.. Reason: Please use code tags for code and data samples, thank you
 

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