From 9f91e6cd597c1392cb8f61def166b230c6000df9 Mon Sep 17 00:00:00 2001
From: Tao Liu <vladimir.liu@gmail.com>
Date: Sat, 2 Mar 2024 09:44:06 -0500
Subject: [PATCH] update versions of dependencies

---
 conda/macs3/meta.yaml | 6 +++---
 docs/INSTALL.md       | 8 ++++----
 pyproject.toml        | 2 +-
 requirements.txt      | 8 ++++----
 setup.py              | 6 +++---
 5 files changed, 15 insertions(+), 15 deletions(-)

diff --git a/conda/macs3/meta.yaml b/conda/macs3/meta.yaml
index a29d3b72..3d27dc2e 100644
--- a/conda/macs3/meta.yaml
+++ b/conda/macs3/meta.yaml
@@ -23,7 +23,7 @@ requirements:
     - Cython ~=3.0
     - cykhash >=2.0,<3.0
     - setuptools >=68.0
-    - hmmlearn >=0.3
+    - hmmlearn >=0.3.2
     - scikit-learn >=1.3
   host:
     - python >=3.11
@@ -31,14 +31,14 @@ requirements:
     - numpy >=1.25
     - scipy >=1.12
     - Cython ~=3.0
-    - hmmlearn >=0.3
+    - hmmlearn >=0.3.2
     - scikit-learn >=1.3
     - cykhash >=2.0,<3.0
   run:
     - python >=3.11
     - numpy >=1.25
     - scipy >=1.12
-    - hmmlearn >=0.3
+    - hmmlearn >=0.3.2
     - scikit-learn >=1.3
     - cykhash >=2.0,<3.0
 
diff --git a/docs/INSTALL.md b/docs/INSTALL.md
index a3ff0cef..cd8b11c0 100644
--- a/docs/INSTALL.md
+++ b/docs/INSTALL.md
@@ -26,10 +26,10 @@ reproducing your results, we also add them into the requirement list
 with specific version numbers. So here is the list of the required
 python libraries that will impact the numerical calculation in MACS3:
 
- - numpy>=1.24 
- - hmmlearn>=0.3
- - scikit-learn>=1.2,<1.4
- - scipy>=1.10
+ - numpy>=1.25 
+ - hmmlearn>=0.3.2
+ - scikit-learn>=1.3
+ - scipy>=1.12
 
 ### Cython
 
diff --git a/pyproject.toml b/pyproject.toml
index 8fdb64aa..27c657d9 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,3 +1,3 @@
 [build-system]
-requires=['setuptools>=60.0', 'numpy>=1.24.2', 'scipy>=1.11.4', 'cykhash>=2.0,<3.0', 'Cython~=3.0', 'scikit-learn>=1.2.1', 'hmmlearn>=0.3.2']
+requires=['setuptools>=68.0', 'numpy>=1.25', 'scipy>=1.12', 'cykhash>=2.0,<3.0', 'Cython~=3.0', 'scikit-learn>=1.3', 'hmmlearn>=0.3.2']
 
diff --git a/requirements.txt b/requirements.txt
index afac3f84..05421616 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -1,8 +1,8 @@
 Cython~=3.0
-numpy>=1.24.2
-scipy>=1.11.4
-scikit-learn>=1.2.1
+numpy>=1.25
+scipy>=1.12
+scikit-learn>=1.3
 hmmlearn>=0.3.2
 cykhash>=2.0,<3.0 
 pytest>=7.0
-setuptools>=60.0
+setuptools>=68.0
diff --git a/setup.py b/setup.py
index ab3b7886..e7028022 100644
--- a/setup.py
+++ b/setup.py
@@ -37,10 +37,10 @@
               'Programming Language :: Python :: 3.12',
               'Programming Language :: Cython', ]
 
-install_requires = [ "numpy>=1.24.2",
-                     "scipy>=1.11.4",
+install_requires = [ "numpy>=1.25",
+                     "scipy>=1.12",
                      "hmmlearn>=0.3.2",
-                     "scikit-learn>=1.2.1",
+                     "scikit-learn>=1.3",
                      "cykhash>=2.0,<3.0"]