Dear List members:
I always have problem in getting ranges:
Following is my representation of part of my file.
>X1
A
G
C
G
>X2
A
G
>X3
A
G
>X4
H
T
I want to print the above contents in the following way:
X1 \t A
X1 \t G
X1 \t C
X1 \t G
X2 \t A
X2 \t G
X3 \t A
X3 \t G
X4 \t H
X4 \t H
Here is what I do :
>>> f1 = open('test','r')
>>> da = f1.read().split('\n')
>>> dat = da[:-1]
>>> dat
>>> mpos = []
>>> for i in range(len(dat)):
if dat[i].startswith('>'):
mpos.append(i)
>>> mpos
[0, 3, 6, 9]
>>> for item in range(len(mpos)):
start = mpos[item]
enda = item+1
end = mpos[enda]-1
head = dat[start]
block = dat[start+1:end]
for i in block:
print head+'\t'+i
>X1A
>X2A
>X3A
Traceback (most recent call last):
File "<pyshell#31>", line 4, in <module>
end = mpos[enda]-1
IndexError: list index out of range
>>>
By the time I am looping through last item, I do not have anything to take 1
from and thus end up with that indexerror.
Could anyone please help me how to get a good habit of making this work. This
is a very wrong and bad habit.
thank you for your help in advance.
Hs.
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