diff --git a/README.md b/README.md
index d0b1cac2..7f56f92f 100644
--- a/README.md
+++ b/README.md
@@ -146,8 +146,8 @@ git checkout -b pkgs-weekly-update-$(date "+%Y-%V")
 git push --set-upstream origin pkgs-weekly-update-$(date "+%Y-%V")
 ```
 
-* Merge automatically created flake update PR (`flake-update-action-pr` branch)
-  in to `pkgs-weekly-update` branch
+* Change base of automatically created flake update PR (`flake-update-action-pr`
+  branch) and merge in in to `pkgs-weekly-update` branch
 
 * Submit `pkgs-weekly-update` PR
 ```
diff --git a/flake.lock b/flake.lock
index d9050601..2b2ec2fa 100644
--- a/flake.lock
+++ b/flake.lock
@@ -72,11 +72,11 @@
     },
     "nixpkgs": {
       "locked": {
-        "lastModified": 1709309926,
-        "narHash": "sha256-VZFBtXGVD9LWTecGi6eXrE0hJ/mVB3zGUlHImUs2Qak=",
+        "lastModified": 1710021367,
+        "narHash": "sha256-FuMVdWqXMT38u1lcySYyv93A7B8wU0EGzUr4t4jQu8g=",
         "owner": "NixOS",
         "repo": "nixpkgs",
-        "rev": "79baff8812a0d68e24a836df0a364c678089e2c7",
+        "rev": "b94a96839afcc56de3551aa7472b8d9a3e77e05d",
         "type": "github"
       },
       "original": {
diff --git a/pkgs/fiona/default.nix b/pkgs/fiona/default.nix
index 8513c723..a200ef7e 100644
--- a/pkgs/fiona/default.nix
+++ b/pkgs/fiona/default.nix
@@ -21,7 +21,7 @@
 
 buildPythonPackage rec {
   pname = "fiona";
-  version = "1.9.5";
+  version = "1.9.6";
   pyproject = true;
 
   disabled = pythonOlder "3.7";
@@ -30,7 +30,7 @@ buildPythonPackage rec {
     owner = "Toblerity";
     repo = "Fiona";
     rev = "refs/tags/${version}";
-    hash = "sha256-fq/BuyzuK4iOxdpE4h+KRH0CxOEk/wdmbb9KgCfJ1cw=";
+    hash = "sha256-MboM3IwGF8cuz+jMQ3QVZFAHjpspQ6kVJincq7OEkCM=";
   };
 
   nativeBuildInputs = [
diff --git a/pkgs/gdal/default.nix b/pkgs/gdal/default.nix
index 5d0fc7a6..38a4342d 100644
--- a/pkgs/gdal/default.nix
+++ b/pkgs/gdal/default.nix
@@ -2,6 +2,7 @@
 , stdenv
 , callPackage
 , fetchFromGitHub
+, fetchpatch
 
 , useMinimalFeatures ? false
 , useTiledb ? (!useMinimalFeatures) && !(stdenv.isDarwin && stdenv.isx86_64)
@@ -88,6 +89,14 @@ stdenv.mkDerivation (finalAttrs: {
     hash = "sha256-R9VLof13OXPbWGHOG1Q4WZWSPoF739C6WuNWxoIwKTw=";
   };
 
+  patches = [
+    # bump java source option to fix build with JDK 21
+    (fetchpatch {
+      url = "https://github.com/OSGeo/gdal/commit/ca2eb4130750b0e6365f738a5f8ff77081f5c5bb.patch";
+      sha256 = "sha256-wShYm9yA7twJR72co+Tvf/IuYXqbI0OrjWl0uqC3bwo=";
+    })
+  ];
+
   nativeBuildInputs = [
     bison
     cmake
diff --git a/pkgs/grass/default.nix b/pkgs/grass/default.nix
index 80fd9ccf..3105bbcb 100644
--- a/pkgs/grass/default.nix
+++ b/pkgs/grass/default.nix
@@ -23,7 +23,6 @@
 , pkg-config
 , postgresql
 , proj
-, proj-datumgrid
 , python3Packages
 , readline
 , sqlite
@@ -71,7 +70,6 @@ stdenv.mkDerivation (finalAttrs: {
     pdal
     postgresql
     proj
-    proj-datumgrid
     readline
     sqlite
     wxGTK32
diff --git a/pkgs/owslib/default.nix b/pkgs/owslib/default.nix
index 5e5e5a07..8bf7b8bc 100644
--- a/pkgs/owslib/default.nix
+++ b/pkgs/owslib/default.nix
@@ -15,7 +15,7 @@
 
 buildPythonPackage rec {
   pname = "owslib";
-  version = "0.29.3";
+  version = "0.30.0";
   format = "setuptools";
 
   disabled = pythonOlder "3.7";
@@ -24,7 +24,7 @@ buildPythonPackage rec {
     owner = "geopython";
     repo = "OWSLib";
     rev = "refs/tags/${version}";
-    hash = "sha256-yAJXknSsGXcerzaOVSrFO4j5E6B/4/0JfoSxZ+Szmws=";
+    hash = "sha256-miKAgZBiqZ6+0qDvlf8+VZ6omH5hlImO0E7AVK7FuD0=";
   };
 
   postPatch = ''
diff --git a/pkgs/shapely/default.nix b/pkgs/shapely/default.nix
index 7f87ddf6..3db9ce9e 100644
--- a/pkgs/shapely/default.nix
+++ b/pkgs/shapely/default.nix
@@ -1,27 +1,28 @@
 { lib
 , stdenv
 , buildPythonPackage
-, pythonOlder
 , fetchPypi
+, pytestCheckHook
+, pythonOlder
+
 , cython
 , geos
+, numpy
 , oldest-supported-numpy
 , setuptools
 , wheel
-, numpy
-, pytestCheckHook
 }:
 
 buildPythonPackage rec {
   pname = "shapely";
-  version = "2.0.2";
-  format = "pyproject";
+  version = "2.0.3";
+  pyproject = true;
 
   disabled = pythonOlder "3.7";
 
   src = fetchPypi {
     inherit pname version;
-    hash = "sha256-FxPMBMFxuv/Fslm6hTHFiswqMBcHt/Ah2IoV7QkGSec=";
+    hash = "sha256-TWXQqnkQr3Hvpy/WRH4CqOXdRNqBqYPenXNtbmzL5nQ=";
   };
 
   nativeBuildInputs = [