From 36c6baedfee62056c5c8de2739555a029f57bc46 Mon Sep 17 00:00:00 2001 From: pyup-bot Date: Mon, 1 Jun 2026 16:11:03 +0100 Subject: [PATCH 1/4] Update cython from 0.29.23 to 3.2.5 --- requirements_dev.txt | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/requirements_dev.txt b/requirements_dev.txt index 6380aca..182a8ef 100644 --- a/requirements_dev.txt +++ b/requirements_dev.txt @@ -1,4 +1,4 @@ -Cython==0.29.23 +Cython==3.2.5 numpy==1.21.0 pysam==0.16.0.1 nose==1.3.7 From f597d32fc2c4a4765b4f8e28652c7d7cb258acde Mon Sep 17 00:00:00 2001 From: pyup-bot Date: Mon, 1 Jun 2026 16:11:04 +0100 Subject: [PATCH 2/4] Update numpy from 1.21.0 to 2.4.6 --- requirements_dev.txt | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/requirements_dev.txt b/requirements_dev.txt index 182a8ef..efc6117 100644 --- a/requirements_dev.txt +++ b/requirements_dev.txt @@ -1,5 +1,5 @@ Cython==3.2.5 -numpy==1.21.0 +numpy==2.4.6 pysam==0.16.0.1 nose==1.3.7 tables==3.6.1 From 5c637bce9c7f1384e3867b44e36ce79ff6892a85 Mon Sep 17 00:00:00 2001 From: pyup-bot Date: Mon, 1 Jun 2026 16:11:05 +0100 Subject: [PATCH 3/4] Update pysam from 0.16.0.1 to 0.24.0 --- requirements_dev.txt | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/requirements_dev.txt b/requirements_dev.txt index efc6117..6af367a 100644 --- a/requirements_dev.txt +++ b/requirements_dev.txt @@ -1,5 +1,5 @@ Cython==3.2.5 numpy==2.4.6 -pysam==0.16.0.1 +pysam==0.24.0 nose==1.3.7 tables==3.6.1 From 000d3fafe59d267509e40cdda6fbf3aebd335874 Mon Sep 17 00:00:00 2001 From: pyup-bot Date: Mon, 1 Jun 2026 16:11:06 +0100 Subject: [PATCH 4/4] Update tables from 3.6.1 to 3.11.1 --- requirements_dev.txt | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/requirements_dev.txt b/requirements_dev.txt index 6af367a..bbf58b8 100644 --- a/requirements_dev.txt +++ b/requirements_dev.txt @@ -2,4 +2,4 @@ Cython==3.2.5 numpy==2.4.6 pysam==0.24.0 nose==1.3.7 -tables==3.6.1 +tables==3.11.1