hi:
I have a very large file 15Gb. Starting from 15th line this file shows the
following lines:
HWUSI-EAS1211_0001:1:1:977:20764#0
HWUSI-EAS1211_0001:1:1:977:20764#0
HWUSI-EAS1521_0001:1:1:978:13435#0
HWUSI-EAS1521_0001:1:1:978:13435#0
Every two lines are part of one readgroup. I want to add two variables to every
line. First variable goes to all lines with odd numbers. Second variable should
be appended to all even number lines. like the following:
HWUSI-EAS1211_0001:1:1:977:20764#0 RG:Z:2301
HWUSI-EAS1211_0001:1:1:977:20764#0 RG:Z:2302
HWUSI-EAS1521_0001:1:1:978:13435#0 RG:Z:2301
HWUSI-EAS1521_0001:1:1:978:13435#0 RG:Z:2302
Since I cannot read the entire file, I wanted to cat the file
something like this:
cat myfile | python myscript.py > myfile.sam
I do not know how to execute my logic after I read the line, althought I tried:
myscript.py:
while True:
second = raw_input()
x = second.split('\t')
Could someone help me here either what I want to do. Or suggesting a different
method.
thanks
_______________________________________________
Tutor maillist - [email protected]
To unsubscribe or change subscription options:
http://mail.python.org/mailman/listinfo/tutor
