From 68676eb42c2267adcc5e000b409aa37072a2c45d Mon Sep 17 00:00:00 2001 From: Intron7 Date: Wed, 6 Aug 2025 18:09:03 +0200 Subject: [PATCH 1/2] update harmony --- docs/release-notes/0.13.0.md | 1 + src/rapids_singlecell/preprocessing/_harmony/_helper.py | 2 +- 2 files changed, 2 insertions(+), 1 deletion(-) diff --git a/docs/release-notes/0.13.0.md b/docs/release-notes/0.13.0.md index 41e33366..20162359 100644 --- a/docs/release-notes/0.13.0.md +++ b/docs/release-notes/0.13.0.md @@ -9,6 +9,7 @@ ```{rubric} Performance ``` +* speed up `pp.harmony_integrate` for smaller datasets {pr}`420` {smaller}`S Dicks` ```{rubric} Bug fixes ``` diff --git a/src/rapids_singlecell/preprocessing/_harmony/_helper.py b/src/rapids_singlecell/preprocessing/_harmony/_helper.py index dc663e29..dc3527f7 100644 --- a/src/rapids_singlecell/preprocessing/_harmony/_helper.py +++ b/src/rapids_singlecell/preprocessing/_harmony/_helper.py @@ -196,7 +196,7 @@ def _scatter_add_cp_bias_csr( n_pcs = X.shape[1] threads_per_block = 1024 - if n_cells < 100_000: + if n_cells < 300_000: blocks = int((n_pcs + 1) / 2) scatter_kernel0 = _get_scatter_add_kernel_with_bias_cat0(X.dtype) scatter_kernel0( From 7e0e5a3710d3fc7f3dcc20de3bb81783681a5bf3 Mon Sep 17 00:00:00 2001 From: Intron7 Date: Wed, 6 Aug 2025 18:10:42 +0200 Subject: [PATCH 2/2] fix release notes --- docs/release-notes/0.13.0.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/docs/release-notes/0.13.0.md b/docs/release-notes/0.13.0.md index 3ae5e934..0dcd2b9e 100644 --- a/docs/release-notes/0.13.0.md +++ b/docs/release-notes/0.13.0.md @@ -1,4 +1,4 @@ -### 0.13.0 {small}`the-future` +### 0.13.0 {small}`2025-08-06` ```{rubric} Features ``` @@ -9,7 +9,7 @@ ```{rubric} Performance ``` -* speed up `pp.harmony_integrate` for smaller datasets {pr}`420` {smaller}`S Dicks` +* speed up `pp.harmony_integrate` for smaller datasets {pr}`421` {smaller}`S Dicks` ```{rubric} Bug fixes ```