def run(self, *args, **kwargs):
start_worker(1)
job = self.create_job(*args, **kwargs)
jobq.put(job)
return job.get_results()
import datetime
import logging
import os
import shutil, glob
from pasta.test import get_testing_configuration, data_source_path, TestLevel, is_test_enabled
from pasta import get_logger, log_exception
from pasta.alignment import Alignment, MultiLocusDataset
from pasta.scheduler import jobq, start_worker
from pasta.filemgr import TempFS
from pasta.usersettingclasses import StringUserSetting, IntUserSetting
_LOG = get_logger(__name__)
config = get_testing_configuration()
start_worker(1)
class TreeEstimatorTest(unittest.TestCase):
def setUp(self):
self.ts = TempFS()
self.ts.create_top_level_temp(prefix='treeEstimatorTest', parent=os.curdir)
self.filename = data_source_path('mafft.anolis.fasta')
self.alignment = Alignment()
self.alignment.read_filepath(data_source_path('mafft.anolis.fasta'),
'FASTA')
def tearDown(self):
dir_list = self.ts.get_remaining_directories()
for dir in dir_list:
try:
self.ts.remove_dir(dir)
import logging
import sys
import os
from pasta.test import get_testing_configuration, data_source_path, TestLevel, is_test_enabled
from pasta import get_logger
from pasta.alignment import Alignment
from pasta.scheduler import jobq, start_worker
from pasta.filemgr import TempFS
_LOG = get_logger(__name__)
config = get_testing_configuration()
start_worker(1)
class AlignerTest(unittest.TestCase):
def setUp(self):
self.ts = TempFS()
self.ts.create_top_level_temp(prefix='alignerTesting',
parent=os.curdir)
def tearDown(self):
dir_list = self.ts.get_remaining_directories()
for dir in dir_list:
self.ts.remove_dir(dir)
def get_aligner(self, name):
try:
def run(self, *args, **kwargs):
start_worker(1)
job = self.create_job(*args, **kwargs)
jobq.put(job)
return job.get_results()