Databases
StackOverflow2013
Postsdbo
POloop fails when increasing string from elements in list
 

Note that there are some explanatory texts on larger screens.

plurals
  1. POloop fails when increasing string from elements in list
    primarykey
    data
    text
    <p>I have some problem with sequence generator. I have a file where each line contain one fragment (8 letters). I load it from file in to list, where each element is one fragment. It is DNA so it should go that way:<br><br> 1. Takes first 8-letter element<br> 2. Check for element in which first 7 letters is the same as last 7 letters in first.<br> 3. Add 8th letter from second element in to sequence.<br></p> <p>It should look like this:</p> <pre><code>ATTGCCAT TTGCCATA TGCAATAC </code></pre> <p>So sequence: ATTGCCATAC</p> <p>Unfortunately it only add one element. :( First element is given (we knew it). I do it that way its first in file (first line).</p> <p>Here is the code:</p> <pre><code>from os import sys import random def frag_get(seqfile): frags = [] f_in = open(seqfile, "r") for i in f_in.readlines(): frags.append(i.strip()) f_in.close() return frags def frag_list_shuffle(frags): random.shuffle(frags) return frags def seq_build(first, frags): seq = first for f in frags: if seq[-7:] == f[:7]: seq += f[-1:] return seq def errors(): pass if __name__ == "__main__": frags = frag_get(sys.argv[1]) first = frags[0] frags.remove(first) frags = frag_list_shuffle(frags) seq = seq_build(first, frags) check(sys.argv[2], seq) spectrum(sys.argv[2], sys.argv[3]) </code></pre> <p>I have deleted check and spectrum functions because it's simple calculations e.g. length comparison, so it is not what cause a problem as I think.</p> <p>I will be very thankfully for help!</p> <p>Regards, Mateusz</p>
    singulars
    1. PO
      singulars
      1. PTAnswer
    1. This table or related slice is empty.
    1. PTQuestion
    1. This table or related slice is empty.
    1. USMateusz Korycinski
    plurals
    1. PL
      singulars
      1. LTLinked
    1. This table or related slice is empty.
    1. This table or related slice is empty.
    1. PO
      singulars
      1. PTAnswer
    2. PO
      singulars
      1. PTAnswer
    3. PO
      singulars
      1. PTAnswer
    1. VO
      singulars
      1. POloop fails when increasing string from elements in list
      1. This table or related slice is empty.
      1. VTUpMod
    2. VO
      singulars
      1. POloop fails when increasing string from elements in list
      1. This table or related slice is empty.
      1. VTUpMod
    1. This table or related slice is empty.
 

Querying!

 
Guidance
A row detail

Detail views are divided into sections. All the information in the data section comes from columns in the selected row. The other sections display data from other, related rows.

Related data can be related in a to-one or a to-many fashion. Captions of data related in a to-many fashion link to a list view showing a filtered view of the table.

Try moving around until you find a non-empty to-many entry and click on the label to get to one. You can move back to the root by clicking on the database name in the header.

SQuiL has stopped working due to an internal error.

If you are curious you may find further information in the browser console, which is accessible through the devtools (F12).

Reload