I tried the code but I get an error: Use of uninitialized value in printf at parse_result.txt.pl line 23, <$fh> line 45.

If I change the code '\t' in place of "\t" I still get the error

The input file is:

HWUSI-EAS95L_0025_FC:3:1:2031:1075#0/1    +    2770970    2771005    
HWUSI-EAS95L_0025_FC:3:1:2031:1075#0/2    +    2771158    2771190    
HWUSI-EAS95L_0025_FC:3:1:2229:1075#0/1    -    1449587    1449620    
HWUSI-EAS95L_0025_FC:3:1:2229:1075#0/2    -    1449425    1449460    
HWUSI-EAS95L_0025_FC:3:1:5001:1079#0/1    -    1449311    1449346    
HWUSI-EAS95L_0025_FC:3:1:5001:1079#0/2    -    1449301    1449336    
HWUSI-EAS95L_0025_FC:3:1:5232:1082#0/1    -    1449586    1449619    
HWUSI-EAS95L_0025_FC:3:1:5232:1082#0/2    -    1449544    1449577    
HWUSI-EAS95L_0025_FC:3:1:6417:1078#0/1    -    4744083    4744113    
HWUSI-EAS95L_0025_FC:3:1:6417:1078#0/2    -    4744011    4744042    
HWUSI-EAS95L_0025_FC:3:1:6539:1083#0/1    -    4867122    4867157    
HWUSI-EAS95L_0025_FC:3:1:6539:1083#0/2    -    4866942    4866977    
HWUSI-EAS95L_0025_FC:3:1:10260:1083#0/1    +    1930232    1930266    
HWUSI-EAS95L_0025_FC:3:1:10260:1083#0/2    +    1930354    1930389    
HWUSI-EAS95L_0025_FC:3:1:10916:1076#0/1    -    4874098    4874133    
HWUSI-EAS95L_0025_FC:3:1:10916:1076#0/2    -    4874089    4874121    
HWUSI-EAS95L_0025_FC:3:1:11022:1076#0/1    +    749842    749877    
HWUSI-EAS95L_0025_FC:3:1:11022:1076#0/2    +    749905    749936    
HWUSI-EAS95L_0025_FC:3:1:11305:1077#0/1    +    2083459    2083494    
HWUSI-EAS95L_0025_FC:3:1:11305:1077#0/2    +    2083661    2083696    
HWUSI-EAS95L_0025_FC:3:1:11824:1080#0/1    +    1930341    1930376    
HWUSI-EAS95L_0025_FC:3:1:11824:1080#0/2    +    1930373    1930408    
HWUSI-EAS95L_0025_FC:3:1:12409:1075#0/1    -    4359407    4359442    
HWUSI-EAS95L_0025_FC:3:1:12409:1075#0/2    -    4359384    4359419    
HWUSI-EAS95L_0025_FC:3:1:15014:1078#0/1    +    742090    742125    
HWUSI-EAS95L_0025_FC:3:1:15014:1078#0/2    +    742134    742168    
HWUSI-EAS95L_0025_FC:3:1:15074:1080#0/1    -    2697450    2697485    
HWUSI-EAS95L_0025_FC:3:1:15074:1080#0/2    -    2697347    2697381    
HWUSI-EAS95L_0025_FC:3:1:15895:1077#0/1    -    3870810    3870845    
HWUSI-EAS95L_0025_FC:3:1:15895:1077#0/2    -    3870798    3870832    
HWUSI-EAS95L_0025_FC:3:1:16241:1078#0/1    +    3726316    3726351    
HWUSI-EAS95L_0025_FC:3:1:16241:1078#0/2    +    3726444    3726479    
HWUSI-EAS95L_0025_FC:3:1:16990:1084#0/1    +    4485745    4485780    
HWUSI-EAS95L_0025_FC:3:1:16990:1084#0/2    +    4485764    4485797    
HWUSI-EAS95L_0025_FC:3:1:1360:1089#0/1    -    4848206    4848241    
HWUSI-EAS95L_0025_FC:3:1:2719:1087#0/1    -    1449535    1449570    
HWUSI-EAS95L_0025_FC:3:1:2719:1087#0/2    -    1449425    1449460    
HWUSI-EAS95L_0025_FC:3:1:2763:1085#0/1    -    1449423    1449458    
HWUSI-EAS95L_0025_FC:3:1:2763:1085#0/2    -    1449427    1449460    
HWUSI-EAS95L_0025_FC:3:1:3151:1099#0/1    -    4867745    4867773    
HWUSI-EAS95L_0025_FC:3:1:3151:1099#0/2    -    4867750    4867774    
HWUSI-EAS95L_0025_FC:3:1:4137:1088#0/1    -    4359723    4359758    
HWUSI-EAS95L_0025_FC:3:1:4137:1088#0/2    -    4359622    4359657    
HWUSI-EAS95L_0025_FC:3:1:4196:1093#0/1    +    2145336    2145371    
HWUSI-EAS95L_0025_FC:3:1:4196:1093#0/2    +    2145456    2145490

[download]

I was hoping to get the output something like 2770970 and 2771190 for the first 2 entries......etc

Hope that makes sense!

In reply to Re^5: compare lines within a file by garyboyd
in thread compare lines within a file by garyboyd

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