Hello group,
Thank you very much for your kind replies. In fact I
survived to pull out what I needed by going with
Kent's tip by enumerating on iterator.
The problem with me is suddenly I embarked on
something big problem and I am surviving it in pieces
by writing pieces of code.
I have another question:
To be brief:
My list contains some elements that I do not want and
I want to remove unwanted elements in my list:
My TEXT file looks like this:
Name=32972_at
Cell1=xxx xxx N control 32972_at
Cell1=xxx xxx N control 32972_at
Cell1=xxx xxx N control 32972_at
Cell1=xxx xxx N control 32972_at
Name=3456_at
Cell1=xxx xxx N control 3456_at
Cell1=xxx xxx N control 3456_at
Cell1=xxx xxx N control 3456_at
Cell1=xxx xxx N control 3456_at
......... ... x xxxxxxxxxxxxxxx
(34K lines)
I want to remove Name=Xxxx_at identifiers.
My List:
['Name=32972_at',
'Cell1=432\t118\tN\tcontrol\t32972_at\t0\t13\tA\tA\tA\t0\t75952\t-1\t-1\t99\t',
'Cell2=432\t117\tN\tcontrol\t32972_at\t0\t13\tA\tT\tA\t0\t75312\t-1\t-1\t99\t',
'Cell3=499\t632\tN\tcontrol\t32972_at\t1\t13\tC\tC\tC\t1\t404979\t-1\t-1\t99\t']
I tried to resolve in this way:
>>>pat = re.compile('Name')
>>> for i in range(len(cord)):
x = pat.search(cord[i])
cord.remove(x)
I know I am wrong here because I do not know how to
search and remove an element in a list. Can any one
please help me.
on Page 98, chapter Lists and dictionaries of mark
lutz's learning python. It is mentioned in table 6-1 :
L2.append(4) Methods: grow,sort,search,reverse etc.
Although not much is covered on this aspect in this
book, I failed to do more operations on list.
Looking forward for help from tutors.
Thank you.
Kumar.
--- Kent Johnson <[EMAIL PROTECTED]> wrote:
> kumar,
>
> Looking at the quantity and structure of your data I
> think the search you are doing is going to be
> pretty slow - you will be doing 4504 * 398169 =
> 1,793,353,176 string searches.
>
> Where does the seq data come from? Could you
> consolidate the pairs of lines into a single record?
> If
> you do that and extract the '399:559' portion, you
> could build a dict that maps '399:559' to the
> full record. Looking up '399:559' in the dictionary
> would be much, much faster than searching the
> entire list.
>
> If you have multiple entries for '399:559' you could
> have the dict map to a list.
>
> Kent
>
> kumar s wrote:
> >
> >>>>len(x)
> >
> > 4504
> >
> >>>>x[1:10]
> >
> > ['454:494', '319:607', '319:608', '322:289',
> > '322:290', '183:330', '183:329', '364:95',
> '364:96']
> >
> >>>>len(seq)
> >
> > 398169
> >
> >>>>seq[0:4]
> >
> > ['>probe:HG-U95Av2:1000_at:399:559;
> > Interrogation_Position=1367; Antisense;',
> > 'TCTCCTTTGCTGAGGCCTCCAGCTT',
> > '>probe:HG-U95Av2:1000_at:544:185;
> > Interrogation_Position=1379; Antisense;',
> > 'AGGCCTCCAGCTTCAGGCAGGCCAA']
> >
> >
> >
> >>>>for ele1 in x:
> >
> > for ele2 in seq:
> > if ele1 in ele2:
> > print ele2
> >
> >
> >
> >>probe:HG-U95Av2:31358_at:454:493;
> >
> > Interrogation_Position=132; Antisense;
> >
> >>probe:HG-U95Av2:31358_at:319:607;
> >
> > Interrogation_Position=144; Antisense;
> >
> >
> >
> >
> >
> >
> > How Do I WANT:
> >
> > I want to print get an output like this:
> >
> >
> >
> >>probe:HG-U95Av2:1000_at:399:559;
> >
> > Interrogation_Position=1367; Antisense;'
> > TCTCCTTTGCTGAGGCCTCCAGCTT
> >
> >
> >>probe:HG-U95Av2:1000_at:544:185;
> >
> > Interrogation_Position=1379; Antisense;
> > AGGCCTCCAGCTTCAGGCAGGCCAA
> >
> >
> > can any one please suggest what is going wrong in
> my
> > statements and how can I get it.
> >
> > Thank you.
> > Kumar
> >
> >
> >
> > __________________________________
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> >
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