From dce8873d213b809eb934ca4b80d0df272216efed Mon Sep 17 00:00:00 2001 From: Daniel Bolin Date: Thu, 24 Aug 2023 16:31:29 -0400 Subject: [PATCH] Normalize gene ids in extract summary --- containers/extract-summary/context/main.py | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/containers/extract-summary/context/main.py b/containers/extract-summary/context/main.py index 9acd1c0..cf4ede6 100644 --- a/containers/extract-summary/context/main.py +++ b/containers/extract-summary/context/main.py @@ -81,6 +81,7 @@ def compute_summary_rows( ) -> t.List[CellSummaryRow]: rowsById: t.Dict[t.Tuple[str, str], CellSummaryRow] = {} cell_id_transform = lambda val: val + gene_id_transform = lambda val: val total = 0 if cell_id_column is None: @@ -89,6 +90,7 @@ def compute_summary_rows( if gene_id_column is None: gene_id_column = gene_label_column + gene_id_transform = normalize_id for item in items: id = (item[cell_id_column], item[gene_id_column]) @@ -96,7 +98,7 @@ def compute_summary_rows( rowsById[id] = _CellSummaryRow( cell_id_transform(item[cell_id_column]), item[cell_label_column], - item[gene_id_column], + gene_id_transform(item[gene_id_column]), item[gene_label_column], ) rowsById[id]["count"] += 1