def test_load_runs():
summary = StudySummary()
requested_runs = [
'/fake/path/200101_M11111_0001_0000000-J1HRQ',
'/fake/path/200108_M11111_0002_0000000-P3RS4'
]
summary.load_runs(requested_runs)
assert summary.run_paths == tuple(
Path(run_path) for run_path in requested_runs)
def test_load_runs_not_in_samples(tmp_path):
runs_root = tmp_path
run1_path = runs_root / '200101_M11111_0001_0000000-J1HRQ'
run1_path.mkdir()
run2_path = runs_root / '200115_M22222_0003_0000000-Y8E4T'
run2_path.mkdir()
samples_csv = StringIO("""\
sample,run,pid
E0001-NFLHIVDNA_S1,200101_M11111,P1
E0002-NFLHIVDNA_S2,200101_M11111,P2
""")
requested_runs = [str(run1_path), str(run2_path)]
summary = StudySummary()
summary.load_runs(requested_runs)
summary.load_samples(samples_csv, runs_root)
assert summary.run_paths == (run1_path, run2_path)