https://github.com/fenderglass/Ragout
Revision 54ec8318ee615f6aa28b3188cfd95ee5679cc317 authored by fenderglass on 15 January 2014, 22:20:24 UTC, committed by fenderglass on 15 January 2014, 22:20:24 UTC
1 parent b0a0b5a
Tip revision: 54ec8318ee615f6aa28b3188cfd95ee5679cc317 authored by fenderglass on 15 January 2014, 22:20:24 UTC
sibelia path fix
sibelia path fix
Tip revision: 54ec831
datatypes.py
from collections import namedtuple
class Scaffold:
def __init__(self, name):
self.left = 0
self.right = 0
self.contigs = []
self.name = name
@staticmethod
def with_contigs(name, left, right, contigs):
scf = Scaffold(name)
scf.left = left
scf.right = right
scf.contigs = contigs
return scf
class Contig:
def __init__(self, name, sign=1, gap=0):
self.name = name
self.sign = sign
self.gap = gap
self.blocks = []
@staticmethod
def from_sting(string):
return Contig(*parse_contig_name(string))
def __str__(self):
sign = "+" if self.sign > 0 else "-"
return sign + self.name
def parse_contig_name(string):
if string[0] not in ["+", "-"]:
return None
sign = 1 if string[0] == "+" else -1
return string[1:], sign
Computing file changes ...
