def test_download_participant_list_file_not_found(self):
temp_dir = tempfile.mkdtemp()
try:
foo = FtpFileTransfer(None)
mockftp = D3RParameters()
mockftp.get = Mock()
foo.set_remote_dir('/foo')
foo.set_connection(mockftp)
params = D3RParameters()
task = DataImportTask(temp_dir, params)
task.set_file_transfer(foo)
task.create_dir()
task._download_participant_list_csv()
self.assertEqual(
task.get_email_log(),
'\nWARNING: participant_list.csv not downloaded '
'which means external users will NOT get '
'evaluation email\n')
mockftp.get\
.assert_called_with('/foo/' +
DataImportTask.PARTICIPANT_LIST_CSV,
local=task.get_participant_list_csv())
finally:
shutil.rmtree(temp_dir)
def test_download_participant_list_no_filetransfer(self):
temp_dir = tempfile.mkdtemp()
try:
params = D3RParameters()
task = DataImportTask(temp_dir, params)
task.create_dir()
task._download_participant_list_csv()
self.assertEqual(
task.get_email_log(), '\nWARNING: Unable to download '
'participant_list.csv which means '
'external users will NOT get evaluation '
'email : \'NoneType\' object has no attribute '
'\'connect\'\n')
finally:
shutil.rmtree(temp_dir)
def test_download_participant_list_success(self):
temp_dir = tempfile.mkdtemp()
try:
foo = FtpFileTransfer(None)
mockftp = D3RParameters()
mockftp.get = Mock()
foo.set_remote_dir('/foo')
foo.set_connection(mockftp)
params = D3RParameters()
task = DataImportTask(temp_dir, params)
task.set_file_transfer(foo)
task.create_dir()
open(task.get_participant_list_csv(), 'a').close()
task._download_participant_list_csv()
self.assertEqual(task.get_email_log(), None)
mockftp.get\
.assert_called_with('/foo/' +
DataImportTask.PARTICIPANT_LIST_CSV,
local=task.get_participant_list_csv())
finally:
shutil.rmtree(temp_dir)
def test_run_all_success_except_participant_download_fails(self):
temp_dir = tempfile.mkdtemp()
try:
params = D3RParameters()
params.pdbfileurl = 'file://' + temp_dir
params.compinchi = 'file://' + temp_dir
make_blast = MakeBlastDBTask(temp_dir, params)
make_blast.create_dir()
open(os.path.join(make_blast.get_dir(), D3RTask.COMPLETE_FILE),
'a').close()
task = DataImportTask(temp_dir, params)
task._retrysleep = 0
open(os.path.join(temp_dir, task.NONPOLYMER_TSV), 'a').close()
open(os.path.join(temp_dir, task.SEQUENCE_TSV), 'a').close()
open(os.path.join(temp_dir, task.OLDSEQUENCE_TSV), 'a').close()
open(os.path.join(temp_dir, task.CRYSTALPH_TSV), 'a').close()
open(os.path.join(temp_dir, task.COMPINCHI_ICH), 'a').close()
task.run()
self.assertEquals(task.get_error(), None)
# check line count is 1 now which indicates
# standard was added
self.assertEqual(
util.get_file_line_count(task.get_nonpolymer_tsv()), 1)
self.assertEqual(util.get_file_line_count(task.get_sequence_tsv()),
1)
self.assertEqual(
util.get_file_line_count(task.get_oldsequence_tsv()), 1)
self.assertEqual(
util.get_file_line_count(task.get_crystalph_tsv()), 1)
self.assertTrue(task.get_email_log().startswith(
'\nWARNING: Unable to download'))
finally:
shutil.rmtree(temp_dir)
