hi all,
I have problem to sort the data.. the file includes data as
follow.
file:
chrX: 123343123 123343182 A_16_P41787782
chrX: 123343417 123343476 A_16_P03762840
chrX: 123343460 123343519 A_16_P41787783
chrX: 12334336 12334395 A_16_P03655927
chrX: 123343756 123343815 A_16_P03762841
chrX: 123343807 123343866 A_16_P41787784
chrX: 123343966 123344024 A_16_P21578670
chrX: 123344059 123344118 A_16_P21578671
chrX: 12334438 12334497 A_16_P21384637
chrX: 123344776 123344828 A_16_P21578672
chrX: 123344811 123344870 A_16_P03762842
chrX: 123345165 123345224 A_16_P41787789
chrX: 123345360 123345419 A_16_P41787790
chrX: 123345380 123345439 A_16_P03762843
chrX: 123345481 123345540 A_16_P41787792
chrX: 123345873 123345928 A_16_P41787793
chrX: 123345891 123345950 A_16_P03762844
how do is sort the file based on the column 1 and 2 with values......
using sort option works for only one column and not for the other how do is
sort both 1 and 2nd column so that the third column does not change.....
my script:#sorting the file
start_lis = []
end_lis = []
fh = open('chromosome_location_346010.bed','r')
for line in fh.readlines():
data = line.strip().split('\t')
start = data[1].strip()
end = data[2].strip()
probe_id = data[3].strip()
start_lis.append(start)
end_lis.append(end)
start_lis.sort()
end_lis.sort()
for k in start_lis:
for i in end_lis
print k , i , probe_id(this doesnot worK)
result = start#end#probe_id ------->this doesnot work...
print result
What is the error and how do is sort a file based on the two column to get
the fourth column also with that.
regards
shafreen
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