File: curated_dataset.py

package info (click to toggle)
python-dendropy 4.2.0%2Bdfsg-1
  • links: PTS, VCS
  • area: main
  • in suites: stretch
  • size: 68,392 kB
  • ctags: 3,947
  • sloc: python: 41,840; xml: 1,400; makefile: 15
file content (50 lines) | stat: -rw-r--r-- 1,279 bytes parent folder | download | duplicates (2)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
#! /usr/bin/env python

##############################################################################
##  DendroPy Phylogenetic Computing Library.
##
##  Copyright 2010-2015 Jeet Sukumaran and Mark T. Holder.
##  All rights reserved.
##
##  See "LICENSE.rst" for terms and conditions of usage.
##
##  If you use this work or any portion thereof in published work,
##  please cite it as:
##
##     Sukumaran, J. and M. T. Holder. 2010. DendroPy: a Python library
##     for phylogenetic computing. Bioinformatics 26: 1569-1571.
##
##############################################################################

"""
DataSet test data generation and verification.
"""

import dendropy
from dendropy.test.support import standard_file_test_chars

class CuratedDataSetGenerator(object):

    def get_dataset(self):
        ds = dendropy.DataSet()
        tns1 = dendropy.TaxonNamespace(label="tns1")

    def get_taxon_namespace(self):
        pass

    def get_tree_list(self, taxon_namespace):
        pass

    def get_standard_char_matrix(self, taxon_namespace):
        pass

    def get_dna_char_matrix(self, taxon_namespace):
        pass

    def get_rna_char_matrix(self, taxon_namespace):
        pass

    def get_protein_char_matrix(self, taxon_namespace):
        pass