diff options
Diffstat (limited to 'tests')
-rw-r--r-- | tests/conftest.py | 15 |
1 files changed, 13 insertions, 2 deletions
diff --git a/tests/conftest.py b/tests/conftest.py index 41dcac1..d441cb9 100644 --- a/tests/conftest.py +++ b/tests/conftest.py @@ -11,13 +11,24 @@ import pytest import jsonpickle from qc_app import create_app -from quality_control.parsing import strain_names from quality_control.errors import InvalidValue, DuplicateHeading @pytest.fixture(scope="session") def strains(): """Parse the strains once every test session""" - return strain_names("etc/strains.csv") + stainnames = set() + with open("etc/strains.csv", encoding="utf8") as strains_file: + for idx, line in enumerate(strains_file.readlines()): + if idx > 0: + parts = line.split() + for name in (parts[1], parts[2]): + stainnames.add(name.strip()) + if len(parts) >= 6: + alias = parts[5].strip() + if alias != "" and alias not in ("P", "\\N"): + stainnames.add(alias) + + return tuple(stainnames) def is_port_in_use(port: int) -> bool: "Check whether `port` is in use" |