On 16.07.2014 10:04, jarod...@libero.it wrote:
Hi there!!!
I have a file with this data
['uc002uvo.3 ', 'uc001mae.1']
['uc010dya.2 ', 'uc001kko.2']
['uc003ejx.2 ', 'uc010yfr.1']
['uc001bhk.2 ', 'uc003eib.2']
['uc001znc.2 ', 'uc001efn.2']
['uc002ycq.2 ', 'uc001vnh.2']
['uc001odf.1 ', 'uc002mwd.2']
['uc010jkn.1 ', 'uc010luk.1']
['uc003uhf.3 ', 'uc010tqd.1']
['uc002rue.3 ', 'uc001tex.2']
['uc011dtt.1 ', 'uc001lkv.1']
['uc003yyt.2 ', 'uc003mkl.2']
['uc003pkv.2 ', 'uc003ytw.2']
['uc010bhz.2 ', 'uc002kbt.1']
['uc001wnj.2 ', 'uc009wtj.1']
['uc011lyh.1 ', 'uc003jvb.2']
['uc002awj.1 ', 'uc009znm.1']
['uc010bft.2 ', 'uc002cxz.1']
['uc011mar.1 ', 'uc001lvb.1']
['uc001oxl.2 ', 'uc002lvx.1']
I want to replace of the things after the dots, so I want to have a file with
this output:
['uc002uvo ', 'uc001mae']
['uc010dya ', 'uc001kko']
...
I try to use regular expression but I have a strange output
with open("non_annotati.csv") as p:
for i in p:
lines= i.rstrip("\n").split("\t")
lines is not the best variable name why not use:
gene1, gene2 = i.rstrip("\n").split("\t")
mit = re.sub(r'(\.\d$)','',lines[0])
mit2 = re.sub(r'(\.\d$)','',lines[1])
print mit,mit2
While Danny has pointed out the actual reason why your code is not
working with this specific input data, it's generally not a good idea to
make too specific assumptions about input formatting by specifying '\n'
and ’\t' explicitly when all you want to do is to eliminate whitespace:
>>> help(s.split)
Help on built-in function split:
split(...) method of builtins.str instance
S.split(sep=None, maxsplit=-1) -> list of strings
Return a list of the words in S, using sep as the
delimiter string. If maxsplit is given, at most maxsplit
splits are done. If sep is not specified or is None, any
whitespace string is a separator and empty strings are
removed from the result.
>>> s='uc002uvo.3 \tuc001mae.1\r\n' # Windows line breaks
>>> s.split()
['uc002uvo.3', 'uc001mae.1']
and I agree with Joel that re is overkill here. In fact, your current
regexp will fail with two digit numbers after the dot though I don't
know whether such names can occur in your data.
Best,
Wolfgang
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