diff --git a/sdrf_pipelines/tests/test_sdrfchecker.py b/sdrf_pipelines/tests/test_sdrfchecker.py index 6e38b8b..feac764 100644 --- a/sdrf_pipelines/tests/test_sdrfchecker.py +++ b/sdrf_pipelines/tests/test_sdrfchecker.py @@ -1,8 +1,6 @@ from click.testing import CliRunner - from sdrf_pipelines.parse_sdrf import cli -from sdrf_pipelines.zooma.zooma import SlimOlsClient -from sdrf_pipelines.zooma.zooma import Zooma +from sdrf_pipelines.zooma.zooma import SlimOlsClient, Zooma def test_validate_srdf(): @@ -25,15 +23,19 @@ def test_convert_openms(): print("convert to openms" + result.output) assert "ERROR" not in result.output + def test_convert_openms_file_extensions(): """ :return: """ runner = CliRunner() - result = runner.invoke(cli, ["convert-openms", "-t2", "-s", "testdata/PXD000288.sdrf.tsv", "--extension_convert", "raw:mzML"]) + result = runner.invoke( + cli, ["convert-openms", "-t2", "-s", "testdata/PXD000288.sdrf.tsv", "--extension_convert", "raw:mzML"] + ) print("convert to openms" + result.output) assert "ERROR" not in result.output + def test_bioontologies(): keyword = "human" client = Zooma()