def test_save_excludes_dotfiles_in_data_dir(self):
def data_initializer(data_dir):
data_dir = str(data_dir)
fp = os.path.join(data_dir, 'ints.txt')
with open(fp, 'w') as fh:
fh.write('1\n')
fh.write('2\n')
fh.write('3\n')
hidden_fp = os.path.join(data_dir, '.hidden-file')
with open(hidden_fp, 'w') as fh:
fh.write("You can't see me if I can't see you\n")
hidden_dir = os.path.join(data_dir, '.hidden-dir')
os.mkdir(hidden_dir)
with open(os.path.join(hidden_dir, 'ignored-file'), 'w') as fh:
fh.write("I'm ignored because I live in a hidden dir :(\n")
archiver = Archiver.from_data(
IntSequence1, IntSequenceDirectoryFormat,
data_initializer=data_initializer)
fp = os.path.join(self.temp_dir.name, 'archive.zip')
archiver.save(fp)
root_dir = str(archiver.uuid)
expected = {
'VERSION',
'metadata.yaml',
'data/ints.txt'
}
self.assertArchiveMembers(fp, root_dir, expected)
def setUp(self):
prefix = "qiime2-test-temp-"
self.temp_dir = tempfile.TemporaryDirectory(prefix=prefix)
# Initialize an Archiver. The values passed to the constructor mostly
# don't matter to the Archiver, but we'll pass valid Artifact test data
# anyways in case Archiver's behavior changes in the future.
def data_initializer(data_dir):
fp = os.path.join(str(data_dir), 'ints.txt')
with open(fp, 'w') as fh:
fh.write('1\n')
fh.write('2\n')
fh.write('3\n')
self.archiver = Archiver.from_data(
IntSequence1, IntSequenceDirectoryFormat,
data_initializer=data_initializer)
def setUp(self):
prefix = "qiime2-test-temp-"
self.temp_dir = tempfile.TemporaryDirectory(prefix=prefix)
# Initialize an Archiver. The values passed to the constructor mostly
# don't matter to the Archiver, but we'll pass valid Artifact test data
# anyways in case Archiver's behavior changes in the future.
def data_initializer(data_dir):
fp = os.path.join(str(data_dir), 'ints.txt')
with open(fp, 'w') as fh:
fh.write('1\n')
fh.write('2\n')
fh.write('3\n')
self.archiver = Archiver.from_data(
IntSequence1, IntSequenceDirectoryFormat,
data_initializer=data_initializer,
provenance_capture=ImportProvenanceCapture())
def test_save_excludes_dotfiles_in_data_dir(self):
def data_initializer(data_dir):
data_dir = str(data_dir)
fp = os.path.join(data_dir, 'ints.txt')
with open(fp, 'w') as fh:
fh.write('1\n')
fh.write('2\n')
fh.write('3\n')
hidden_fp = os.path.join(data_dir, '.hidden-file')
with open(hidden_fp, 'w') as fh:
fh.write("You can't see me if I can't see you\n")
hidden_dir = os.path.join(data_dir, '.hidden-dir')
os.mkdir(hidden_dir)
with open(os.path.join(hidden_dir, 'ignored-file'), 'w') as fh:
fh.write("I'm ignored because I live in a hidden dir :(\n")
archiver = Archiver.from_data(
IntSequence1, IntSequenceDirectoryFormat,
data_initializer=data_initializer,
provenance_capture=ImportProvenanceCapture())
fp = os.path.join(self.temp_dir.name, 'archive.zip')
archiver.save(fp)
root_dir = str(archiver.uuid)
expected = {
'VERSION',
'metadata.yaml',
'data/ints.txt',
'provenance/metadata.yaml',
'provenance/VERSION',
'provenance/action/action.yaml'
}
self.assertArchiveMembers(fp, root_dir, expected)
