remove function test_get_spectra_from_mfs

NPLinker · Dec 19, 2023 · 53247f7 · 53247f7
1 parent 3820347
commit 53247f7
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diff --git a/src/nplinker/metabolomics/__init__.py b/src/nplinker/metabolomics/__init__.py
@@ -4,7 +4,6 @@
 from .utils import add_annotation_to_spectrum
 from .utils import add_spectrum_to_mf
 from .utils import add_strains_to_spectrum
-from .utils import get_spectra_from_mfs
 
 
 logging.getLogger(__name__).addHandler(logging.NullHandler())
@@ -13,7 +12,6 @@
 __all__ = [
     "MolecularFamily",
     "Spectrum",
-    "get_spectra_from_mfs",
     "add_annotation_to_spectrum",
     "add_spectrum_to_mf",
     "add_strains_to_spectrum",

diff --git a/src/nplinker/metabolomics/utils.py b/src/nplinker/metabolomics/utils.py
@@ -113,18 +113,3 @@ def add_spectrum_to_mf(
         f"{len(mf_missing_spec)} MolecularFamily objects have missing Spectrum objects."
     )
     return mf_with_spec, mf_without_spec, mf_missing_spec
-
-
-def get_spectra_from_mfs(mfs: list[MolecularFamily]) -> list[Spectrum]:
-    """Get all Spectrum objects from given MolecularFamily objects.
-
-    Args:
-        mfs(list[MolecularFamily]): A list of MolecularFamily objects.
-
-    Returns:
-        list[Spectrum]: A list of Spectrum objects.
-    """
-    s = set()
-    for mf in mfs:
-        s |= set(mf.spectra)
-    return list(s)
diff --git a/tests/metabolomics/test_utils.py b/tests/metabolomics/test_utils.py
@@ -4,7 +4,6 @@
 from nplinker.metabolomics import add_annotation_to_spectrum
 from nplinker.metabolomics import add_spectrum_to_mf
 from nplinker.metabolomics import add_strains_to_spectrum
-from nplinker.metabolomics import get_spectra_from_mfs
 from nplinker.strain import Strain
 from nplinker.strain_collection import StrainCollection
 
@@ -77,24 +76,3 @@ def test_add_spectrum_to_mf(spectra):
     assert mf_with_spec == [mf0, mf1]
     assert mf_without_spec == [mf2]
     assert mf_missing_spec == {mf1: {"spec-missing-1"}, mf2: {"spec-missing-2", "spec-missing-3"}}
-
-
-def test_get_spectra_from_mfs(spectra):
-    """Test the get_spectra_from_mfs function."""
-    mf0 = MolecularFamily("mf0")
-    mf0.spectra_ids = {"spec0", "spec1"}
-    mf0.add_spectrum(spectra[0])
-    mf0.add_spectrum(spectra[1])
-    mf1 = MolecularFamily("mf1")
-    mf1.spectra_ids = {
-        "spec2",
-        "spec-missing-1",
-    }
-    mf1.add_spectrum(spectra[2])
-    mf2 = MolecularFamily("mf2")
-    mf2.spectra_ids = {"spec-missing-2", "spec-missing-3"}
-    mfs = [mf0, mf1, mf2]
-
-    spec_from_mfs = get_spectra_from_mfs(mfs)
-
-    assert len(spec_from_mfs) == 3