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fix scanvi_scarches integration test
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  • src/workflows/annotation/scanvi_scarches

src/workflows/annotation/scanvi_scarches/test.nf

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@@ -16,6 +16,7 @@ workflow test_wf {
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input: resources_test.resolve("pbmc_1k_protein_v3/pbmc_1k_protein_v3_mms.h5mu"),
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input_obs_batch_label: "sample_id",
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reference: resources_test.resolve("annotation_test_data/TS_Blood_filtered.h5mu"),
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reference_var_hvg: "highly_variable",
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reference_obs_batch_label: "donor_assay",
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reference_obs_target: "cell_type",
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reference_var_gene_names: "ensemblid",
@@ -79,6 +80,7 @@ workflow test_wf {
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reference_obs_batch_label: "donor_assay",
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reference_obs_target: "cell_type",
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reference_var_gene_names: "ensemblid",
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reference_var_hvg: "highly_variable",
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max_epochs: 10,
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obsm_embedding: "X_pca"
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]

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