For Loop Problem

For loop issue: in1 = open('file_1', 'r') in2 = open('file_2', 'r') outf = open('out_file', 'w') for line in in1: s = line.split('\t') A = s[1][:-1] B = s[0] coun

Solution 1:

You can iterate over a file only once. To start from the beginning again, use

in2.seek(0)

before the inner loop.

Solution 2:

The first time you loop over in2, you consume it. Either reopen it, or seek back to the beginning.

Solution 3:

Once you have read each line from file_2 in the inner loop then in2 is at end-of-file. If you want to read file_2 for each line in file_1 then add:

    in2.seek(0)

just before or after the write.

Solution 4:

When working with files, please do this

withopen('out_file', 'w') as outf:
    withopen('file_1', 'r') as in1:
        for line in in1:
            s = line.split('\t')
            a = s[1][:-1]
            b = s[0]
            counter = 0withopen('file_2', 'r') as in2:
                for line in in2:
                    etc.

Using with assures your files are closed.

Opening a file in the smallest enclosing scope guarantees it can be read all the way through. It's costly to keep reopening the file, but there are a lot of ways to speed up this application.

Also, please use only lowercase variable names. Reserve Uppercase for class names.