def setUp(self): WithTempDir.setUp(self) self.lex = LexStat(test_data('KSL.qlc')) self.part = Partial(test_data('partial_cognates.tsv'), segments='segments') self.part.add_entries('pid1', 'partial_cognate_sets', lambda x: x) self.part.add_entries('pid2', 'partialids2', lambda x: [int(y) for y in x.split(' ')])
def setUp(self): WithTempDir.setUp(self) self.matrix = [[0.0, 0.5, 0.67, 0.8, 0.2], [0.5, 0.0, 0.4, 0.7, 0.6], [0.67, 0.4, 0.0, 0.8, 0.8], [0.8, 0.7, 0.8, 0.0, 0.3], [0.2, 0.6, 0.8, 0.3, 0.0]] self.taxa = ['German','Swedish','Icelandic','English','Dutch']
def setUp(self): WithTempDir.setUp(self) self.hlc = link_clustering.HLC( { "a" : set(["b", "c"]), "b" : set(["c"]), "c" : set(["a"]) }, set([("a", "b"), ("b", "c"), ("a", "c")]) )
def setUp(self): WithTempDir.setUp(self) self.tmp_path('_test').mkdir() with self.tmp_path('_test', 'converter').open(mode='w', encoding='utf8') as fp: fp.write("""\ p : p, ɸ, p͡f b : b, β, b͡v f : f v : v m : m, ɱ w : w, ɰ, ʋ, ʍ 8 : θ, θ, Ɵ, ð""") with self.tmp_path('_test', 'scorer').open(mode='w', encoding='utf8') as fp: fp.write(SCORER)
def setUp(self): WithTempDir.setUp(self) self.inputfile = os.path.join( os.path.dirname(lingpy.__file__), 'tests', 'test_data', 'phybo.qlc')
def setUp(self): WithTempDir.setUp(self) self.wordlist = Wordlist(test_data('colexification.tsv')) self.cols = colx._get_colexifications(self.wordlist)
def setUp(self): WithTempDir.setUp(self) self.alm = Alignments(test_data('KSL2.qlc'), loans=False, _interactive=False)
def setUp(self): WithTempDir.setUp(self) self.part = Partial(test_data('partial_cognates.tsv'), segments='segments') self.part2 = Partial(test_data('partial_cognates-scored.tsv'), segments='segments')
def setUp(self): WithTempDir.setUp(self) self.wordlist = Wordlist(test_data('KSL.qlc'))
def setUp(self): WithTempDir.setUp(self) self.cfg = os.path.join(self.tmp, '.config')
def setUp(self): WithTempDir.setUp(self) self.newick = '(((a,b),(c,d)),e);' self.tree = Tree(self.newick)
def setUp(self): WithTempDir.setUp(self) self.wordlist = Wordlist(test_data('KSL.qlc')) self.wordlist2 = Wordlist(test_data('good_file.tsv'))
def setUp(self): WithTempDir.setUp(self) self.inputfile = os.path.join(os.path.dirname(lingpy.__file__), 'tests', 'test_data', 'phybo.qlc')
def setUp(self): WithTempDir.setUp(self) self.lex = LexStat(test_data('KSL.qlc'))
def setUp(self): WithTempDir.setUp(self) self.lex = LexStat(test_data('KSL.qlc')) self.log = get_log() self.get_scorer_kw = dict(runs=10, rands=10, limit=100)