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test genome features
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tests/anoph/test_genome_features.py

Lines changed: 12 additions & 7 deletions
Original file line numberDiff line numberDiff line change
@@ -7,7 +7,8 @@
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from malariagen_data import af1 as _af1
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from malariagen_data import ag3 as _ag3
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from malariagen_data import adir1 as _adir1
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from malariagen_data import as1 as _as1
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from malariagen_data.anoph.genome_features import AnophelesGenomeFeaturesData
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from malariagen_data.util import Region, _resolve_region
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@@ -44,13 +45,13 @@ def af1_sim_api(af1_sim_fixture):
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@pytest.fixture
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def adir1_sim_api(adir1_sim_fixture):
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def as1_sim_api(as1_sim_fixture):
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return AnophelesGenomeFeaturesData(
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url=adir1_sim_fixture.url,
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public_url=adir1_sim_fixture.url,
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config_path=_adir1.CONFIG_PATH,
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major_version_number=_adir1.MAJOR_VERSION_NUMBER,
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major_version_path=_adir1.MAJOR_VERSION_PATH,
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url=as1_sim_fixture.url,
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public_url=as1_sim_fixture.url,
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config_path=_as1.CONFIG_PATH,
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major_version_number=_as1.MAJOR_VERSION_NUMBER,
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major_version_path=_as1.MAJOR_VERSION_PATH,
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pre=False,
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gff_gene_type="protein_coding_gene",
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gff_gene_name_attribute="Note",
@@ -70,6 +71,10 @@ def case_adir1_sim(adir1_sim_fixture, adir1_sim_api):
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return adir1_sim_fixture, adir1_sim_api
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def case_as1_sim(as1_sim_fixture, as1_sim_api):
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return as1_sim_fixture, as1_sim_api
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gff3_cols = [
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"contig",
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"source",

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