def populate_test(self, tree_filepath, splitscsv_filepath,
expected_num_trees):
self.tree_filepath = pathmap.data_source_path(tree_filepath)
self.taxa_filepath = self.tree_filepath
self.splitscsv_filepath = pathmap.data_source_path(
splitscsv_filepath)
self.expected_num_trees = expected_num_trees
self.expected_split_freqs = dict([
(s[0], int(s[1]))
for s in csv.reader(open(self.splitscsv_filepath, "rU"))
])
def setUp(self):
self.taxa_filepath = pathmap.data_source_path(["trees", "feb032009.tre"])
self.expected_taxlabels = ("T01", "T02", "T03", "T04", "T05", "T06",
"T07", "T08", "T09", "T10", "T11", "T12", "T13", "T14",
"T15", "T16", "T17", "T18", "T19", "T20", "T21", "T22",
"T23", "T24", "T25", "T26", "T27", "T28", "T29", "T30",
"T31", "T32", "T33", "T34", "T35", "T36", "T37", "T38",
"T39", "T40", "T41", "T42", "T43", "T44", "T45", "T46",
"T47", "T48", "T49", "T50", "T51", "T52", "T53", "T54",
"T55", "T56", "T57", "T58", "T59")
def setUp(self):
self.taxa_filepath = pathmap.data_source_path(
["chars", "primates.chars.nexus"])
self.expected_taxlabels = (
"Lemur catta",
"H**o sapiens",
"Pan",
"Gorilla",
"Pongo",
"Hylobates",
"Macaca fuscata",
"Macaca mulatta",
"Macaca fascicularis",
"Macaca sylvanus",
"Saimiri sciureus",
"Tarsius syrichta",
)
def populate_test(self, tree_filepath, splitscsv_filepath, expected_num_trees):
self.tree_filepath = pathmap.data_source_path(tree_filepath)
self.taxa_filepath = self.tree_filepath
self.splitscsv_filepath = pathmap.data_source_path(splitscsv_filepath)
self.expected_num_trees = expected_num_trees
self.expected_split_freqs = dict([ (s[0], int(s[1])) for s in csv.reader(open(self.splitscsv_filepath, "rU"))])
def setUp(self):
self.taxa_filepath = pathmap.data_source_path(["chars", "primates.chars.nexus"])
self.expected_taxlabels = ("Lemur catta", "H**o sapiens",
"Pan", "Gorilla", "Pongo", "Hylobates", "Macaca fuscata",
"Macaca mulatta", "Macaca fascicularis", "Macaca sylvanus",
"Saimiri sciureus", "Tarsius syrichta", )
