def test_process_file_no_scheme(caplog):
""" Ensure that when process_file is called without a scheme and no
'HOST_BASE_PATH', 'CONTAINER_BASE_PATH' environment variables
set, the appropriate error is raised."""
filedata = {'url': 'www.foo.bar'}
with pytest.raises(FileProtocolDisabled):
process_file('upload', filedata)
def test_process_file_from_content(tmpdir, tmp_path):
""" Ensure 'process_file' behaves correctly when the file contents
should be drawn from the filedata content field."""
test_file = tmpdir.join("testfile")
filedata = {
'path': str(tmp_path) + '/testfile',
'content': 'This is some test content'
}
process_file('inputs', filedata)
assert open(str(tmp_path) + '/testfile', 'r').read() == filedata['content']
def test_upload_dir(self, copyMock, copyDirMock):
filedata = {
"url": "file:///home/tfga/workspace/cwl-tes/tmphrtip1o8/",
"path": "/TclSZU",
"type": "DIRECTORY",
"name": "workdir"
}
process_file('outputs', filedata)
copyMock.assert_not_called()
copyDirMock.assert_called_once_with('/TclSZU', '/transfer/tmphrtip1o8')
def test_process_file_with_scheme(mocker):
""" Ensure expected behaviour when 'process_file' is called with scheme.
In this test example, scheme is 'http', filedata:type is 'FILE' and
ttype is 'inputs'."""
filedata = {
'url': 'http://www.foo.bar',
'path': '.',
'type': 'FILE',
}
mock_new_Trans = mocker.patch('tesk_core.filer.newTransput')
process_file('inputs', filedata)
mock_new_Trans.assert_called_once_with('http','www.foo.bar')
def test_upload_file(self, copyFileMock, copyDirMock):
filedata = {
"url": "file:///home/tfga/workspace/cwl-tes/tmphrtip1o8/md5",
"path": "/TclSZU/md5",
"type": "FILE",
"name": "stdout"
}
process_file('outputs', filedata)
copyDirMock.assert_not_called()
copyFileMock.assert_called_once_with('/TclSZU/md5',
'/transfer/tmphrtip1o8/md5')
def test_download_file(self, copyMock, copyDirMock):
filedata = {
"url": "file:///home/tfga/workspace/cwl-tes/tmphrtip1o8/md5",
"path": "/var/lib/cwl/stgda974802-fa81-4f0b-8fe4-341d5655af4b/md5",
"type": "FILE", # File = 'FILE'
# Directory = 'DIRECTORY'
"name": "md5",
"description": "cwl_input:md5"
}
process_file('inputs', filedata)
copyDirMock.assert_not_called()
copyMock.assert_called_once_with(
'/transfer/tmphrtip1o8/md5', '/var/lib/cwl/stgda974802-fa81-4f0b-'
'8fe4-341d5655af4b/md5')