From fad12c7d637463350b83a8ea69dfe5bbe9558b63 Mon Sep 17 00:00:00 2001 From: pyup-bot Date: Mon, 1 Dec 2025 15:24:24 +0000 Subject: [PATCH 1/4] Update cython from 0.29.23 to 3.2.2 --- requirements_dev.txt | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/requirements_dev.txt b/requirements_dev.txt index 6380aca..11814f0 100644 --- a/requirements_dev.txt +++ b/requirements_dev.txt @@ -1,4 +1,4 @@ -Cython==0.29.23 +Cython==3.2.2 numpy==1.21.0 pysam==0.16.0.1 nose==1.3.7 From 598def0032cbc41ee426fa1fd373a62b61fa5934 Mon Sep 17 00:00:00 2001 From: pyup-bot Date: Mon, 1 Dec 2025 15:24:25 +0000 Subject: [PATCH 2/4] Update numpy from 1.21.0 to 2.3.5 --- requirements_dev.txt | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/requirements_dev.txt b/requirements_dev.txt index 11814f0..819938d 100644 --- a/requirements_dev.txt +++ b/requirements_dev.txt @@ -1,5 +1,5 @@ Cython==3.2.2 -numpy==1.21.0 +numpy==2.3.5 pysam==0.16.0.1 nose==1.3.7 tables==3.6.1 From a1eec873bcf3ade95f799435c34745a2ca2763ab Mon Sep 17 00:00:00 2001 From: pyup-bot Date: Mon, 1 Dec 2025 15:24:25 +0000 Subject: [PATCH 3/4] Update pysam from 0.16.0.1 to 0.23.3 --- requirements_dev.txt | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/requirements_dev.txt b/requirements_dev.txt index 819938d..46c7305 100644 --- a/requirements_dev.txt +++ b/requirements_dev.txt @@ -1,5 +1,5 @@ Cython==3.2.2 numpy==2.3.5 -pysam==0.16.0.1 +pysam==0.23.3 nose==1.3.7 tables==3.6.1 From f6f6734ce68f665e96925c25ea3c9bd903904d1d Mon Sep 17 00:00:00 2001 From: pyup-bot Date: Mon, 1 Dec 2025 15:24:26 +0000 Subject: [PATCH 4/4] Update tables from 3.6.1 to 3.10.2 --- requirements_dev.txt | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/requirements_dev.txt b/requirements_dev.txt index 46c7305..3277c22 100644 --- a/requirements_dev.txt +++ b/requirements_dev.txt @@ -2,4 +2,4 @@ Cython==3.2.2 numpy==2.3.5 pysam==0.23.3 nose==1.3.7 -tables==3.6.1 +tables==3.10.2