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fixes requested by @ahernank
1 parent b5db935 commit 90da5cc

10 files changed

Lines changed: 4 additions & 2270 deletions

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malariagen_data/amin1.py

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@@ -141,8 +141,8 @@ def __repr__(self):
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f"Site filters analysis : {self._site_filters_analysis}\n"
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f"Software version : malariagen_data {malariagen_data.__version__}\n"
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f"Client location : {self.client_location}\n"
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f"Data filtered to unrestricted use only: {self._unrestricted_use_only}\n"
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f"Data filtered to surveillance use only: {self._surveillance_use_only}\n"
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# f"Data filtered to unrestricted use only: {self._unrestricted_use_only}\n" # Commented out pending update of data catalog
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# f"Data filtered to surveillance use only: {self._surveillance_use_only}\n" # Ditto
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f"Relevant data releases : {', '.join(self.releases)}\n"
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f"---\n"
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f"Please note that data are subject to terms of use,\n"

tests/anoph/conftest.py

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@@ -2540,9 +2540,9 @@ def init_genome_features(self):
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path.parent.mkdir(parents=True, exist_ok=True)
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simulator = Gff3Simulator(
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contig_sizes=self.contig_sizes,
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# Af1 has a different gene type
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# Adir1 has a different gene type
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gene_type="protein_coding_gene",
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# Af1 has different attributes
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# Adir1 has different attributes
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attrs=("Note", "description"),
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)
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self.genome_features = simulator.simulate_gff(path=path)

tests/anoph/fixture/vo_amin_release_master_us_central1/v1.0/metadata/metadata/cohorts_20251019/1175-VO-KH-STLAURENT/samples.admin_units.csv

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tests/anoph/fixture/vo_amin_release_master_us_central1/v1.0/metadata/metadata/cohorts_20251019/1175-VO-KH-STLAURENT/samples.cohorts.csv

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tests/anoph/fixture/vo_amin_release_master_us_central1/v1.0/metadata/metadata/cohorts_20251019/1175-VO-KH-STLAURENT/samples.taxa.csv

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