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Shell Programming and Scripting

Sum specified values (columns) per row

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Top Forums Shell Programming and Scripting Sum specified values (columns) per row
# 8  
Old 04-19-2014
Code:
$ cat test.txt
comp51820_c1_seq1    405    N    0:29:0:0:0:0    0:51:0:0:0:0    0:57:0:0:0:0    0:6:0:0:0:0    0:37:0:0:0:0
comp51820_c1_seq1    406    N    0:0:0:29:0:0    0:0:0:51:0:0    0:0:0:57:0:0    0:0:0:6:0:0    0:0:0:37:0:0
comp51820_c1_seq1    407    N    0:0:0:31:0:0    0:0:0:48:0:0    0:0:0:59:0:0    0:0:0:8:0:0    0:0:0:45:0:0
comp51820_c1_seq1    408    N    0:31:0:0:0:0    0:51:0:0:0:0    0:60:0:0:0:0    0:9:0:0:0:0    0:48:0:0:0:0
comp51820_c1_seq1    409    N    0:1:0:0:0:0    0:51:0:0:0:0    0:60:0:0:0:0    0:9:0:0:0:0    0:48:0:0:0:0

$ awk '{for(i=4;i<=NF;i++){n=split($i,arr,":");for(j=1;j<=n;j++)tot+=arr[j];if(tot==8){print;next}tot=0;}}' test.txt
comp51820_c1_seq1    407    N    0:0:0:31:0:0    0:0:0:48:0:0    0:0:0:59:0:0    0:0:0:8:0:0    0:0:0:45:0:0

Last edited by itkamaraj; 04-19-2014 at 12:43 AM.. Reason: output format correction
# 9  
Old 04-19-2014
This works to exclude the correct lines, but it also excludes a line that should be accepted (since the five sums (one from each column) are all >= 8). Desired output is:
Code:
comp51820_c1_seq1	407	N	0:0:0:31:0:0	0:0:0:48:0:0	0:0:0:59:0:0	0:0:0:8:0:0	0:0:0:45:0:0
comp51820_c1_seq1	408	N	0:31:0:0:0:0	0:51:0:0:0:0	0:60:0:0:0:0	0:9:0:0:0:0	0:48:0:0:0:0

I'm trying to understand why the first line above is excluded from the output...
# 10  
Old 04-19-2014
sorry.. i didnt understand your question...

so, you mean.. if any of the column sum is less than 8, then it should not print the line ?

---------- Post updated at 12:30 PM ---------- Previous update was at 12:17 PM ----------

so.. something like this ?

Code:
$ awk '{for(i=4;i<=NF;i++){n=split($i,arr,":");tot=0;for(j=1;j<=n;j++)tot+=arr[j];if(tot>=8){flag+=1;}}if(flag==5)print;flag=0}' test.txt
comp51820_c1_seq1    407    N    0:0:0:31:0:0    0:0:0:48:0:0    0:0:0:59:0:0    0:0:0:8:0:0    0:0:0:45:0:0
comp51820_c1_seq1    408    N    0:31:0:0:0:0    0:51:0:0:0:0    0:60:0:0:0:0    0:9:0:0:0:0    0:48:0:0:0:0

This User Gave Thanks to itkamaraj For This Post:
pathunkathunk
# 11  
Old 04-19-2014
Yes that's right. That's a better way of saying it.
So if input is:
Code:
comp51820_c1_seq1    405    N    0:29:0:0:0:0    0:51:0:0:0:0    0:57:0:0:0:0    0:6:0:0:0:0    0:37:0:0:0:0
comp51820_c1_seq1    406    N    0:0:0:29:0:0    0:0:0:51:0:0    0:0:0:57:0:0    0:0:0:6:0:0    0:0:0:37:0:0
comp51820_c1_seq1    407    N    0:0:0:31:0:0    0:0:0:48:0:0    0:0:0:59:0:0    0:0:0:8:0:0    0:0:0:45:0:0
comp51820_c1_seq1    408    N    0:31:0:0:0:0    0:51:0:0:0:0    0:60:0:0:0:0    0:9:0:0:0:0    0:48:0:0:0:0
comp51820_c1_seq1    409    N    0:1:0:0:0:0    0:51:0:0:0:0    0:60:0:0:0:0    0:9:0:0:0:0    0:48:0:0:0:0

Then output is:
Code:
comp51820_c1_seq1    407    N    0:0:0:31:0:0    0:0:0:48:0:0    0:0:0:59:0:0    0:0:0:8:0:0    0:0:0:45:0:0
comp51820_c1_seq1    408    N    0:31:0:0:0:0    0:51:0:0:0:0    0:60:0:0:0:0    0:9:0:0:0:0    0:48:0:0:0:0

# 12  
Old 04-19-2014
read my above post
# 13  
Old 04-19-2014
That does the job, thank you!

(I was reading quickly and skipped over your solution thinking it was just a quote from the previous message.)
# 14  
Old 04-19-2014
Didn't you say you need to exempt the fifth value in any column? Try (based on itkamaraj's proposal):
Code:
awk     '       {for (i=4; i<=NF; i++){
                          n = split ($i, TMP, ":")
                          tot = -TMP[5] 
                          for (j=1; j<=n; j++) tot += TMP[j]
                          if (tot<8) break
                        }
                        if (i>NF) print
                }
        ' file
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