Umair Khan
commited on
Commit
·
b0c2b35
1
Parent(s):
90e95be
explicitly rename index in .var
Browse files
app.py
CHANGED
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@@ -48,7 +48,7 @@ PARQUET_EMB_COL = "tx1-70m"
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# helper to read AnnData header
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def read_anndata_header(fileobj):
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adata = sc.read_h5ad(fileobj.name, backed="r")
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adata.var = adata.var.reset_index(drop=False)
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layers = list(adata.layers.keys())
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var_cols = list(adata.var.columns)
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obs_cols = list(adata.obs.columns)
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@@ -155,7 +155,7 @@ def _embed(adata_bytes, layer_name, feature_col, use_symbols, progress):
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# load into memory, subsetting if needed
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adata = adata_backed[:limit, :].to_memory()
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adata.var = adata.var.reset_index(drop=False)
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try:
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adata_backed.file.close()
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except Exception:
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# helper to read AnnData header
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def read_anndata_header(fileobj):
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adata = sc.read_h5ad(fileobj.name, backed="r")
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+
adata.var = adata.var.reset_index(drop=False, names="index")
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layers = list(adata.layers.keys())
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var_cols = list(adata.var.columns)
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obs_cols = list(adata.obs.columns)
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# load into memory, subsetting if needed
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adata = adata_backed[:limit, :].to_memory()
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adata.var = adata.var.reset_index(drop=False, names="index")
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try:
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adata_backed.file.close()
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except Exception:
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