def write(self):
if hasattr(self, 'result'):
errors.directorymake(self.outdir)
for rec in self.result:
filename = fileIO.join_path(self.outdir, rec.name) + '.phy'
rec.write_phylip(filename, interleaved=True)
for i in range(self.num_classes):
tree = self.class_trees[i+1]
name = 'tree{0:0>{1}}.nwk'.format(i+1, len(str(self.num_classes)))
filename = fileIO.join_path(self.outdir, name)
tree.write_to_file(filename)
filename = fileIO.join_path(self.outdir, 'true_partition.txt')
with open(filename, 'w') as partition_file:
partition_file.write(repr(self.true_partition))
def write(self):
if hasattr(self, 'result'):
errors.directorymake(self.outdir)
for rec in self.result:
filename = fileIO.join_path(self.outdir, rec.name) + '.phy'
rec.write_phylip(filename, interleaved=True)
for i in range(self.num_classes):
tree = self.class_trees[i + 1]
name = 'tree{0:0>{1}}.nwk'.format(i + 1,
len(str(self.num_classes)))
filename = fileIO.join_path(self.outdir, name)
tree.write_to_file(filename)
filename = fileIO.join_path(self.outdir, 'true_partition.txt')
with open(filename, 'w') as partition_file:
partition_file.write(repr(self.true_partition))
def make_alf_dirs(self):
alf_dirs = {}
for k in range(self.num_classes):
dirname = fileIO.join_path(self.tmpdir,
'class{0:0>1}'.format(k + 1))
alf_dirs[k + 1] = errors.directorymake(dirname)
self.alf_dirs = alf_dirs
def make_alf_dirs(self):
alf_dirs = {}
for k in range(self.num_classes):
dirname = fileIO.join_path(self.tmpdir, 'class{0:0>1}'.format(
k+1))
alf_dirs[k+1] = errors.directorymake(dirname)
self.alf_dirs = alf_dirs
