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Finding most common substrings

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# 8  
Old 02-25-2014
Quote:
Originally Posted by verse123
thanks, don. I have 2 last questions.

Some helpful individuals from the forums helped with this code below but it seems to be generating the same output for any string pattern I give it when I run it with a large file (200GB). However, when I run it with a small test file, that output is different for each string. Why do you think this could be happening?

Also, am I recording the length appropriately for all of the column 2 lines that have the same ID from column 1? Here's the code:


Code:
JOIN="joined.join"
cod1="ypehe"
cod2="edog"

awk '
        NR==1{
                print "ID", "cod_freq", "ID_freq", "length"
                next
             }
      FNR==NR{
                A[$1]++
                B[$1]+=gsub(/'${cod1}' || '${cod2}'/,x, $2)
                C[$1]+=length($2)
                next
             } 
    ($1 in A){ 
                print $1,B[$1],A[$1],C[$1]
                delete A[$1]
                delete B[$1]
                delete C[$1]
             }

    ' OFS='\t' ${JOIN}.out{,} > ${JOIN}.freq

I don't understand how this code applies to this thread???
# 9  
Old 02-27-2014
Hi Don, I noticed that when I change the length of the substring combinations to look for above 10, I get smaller than 10 character patterns in the output. How can I prevent awk from doing this?
# 10  
Old 02-28-2014
Quote:
Originally Posted by verse123
Hi Don, I noticed that when I change the length of the substring combinations to look for above 10, I get smaller than 10 character patterns in the output. How can I prevent awk from doing this?
You said you wanted strings containing 6 characters, and the code I gave you processes substrings containing 6 characters. Please show us how you modified the code to handle strings of the length you want now.

In your sample input, the strings to be searched always contained more than 6 characters. Do you ever have an input field that is shorter then the substring length you're looking for? The code I gave you didn't check for this possibility.
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