chore: prepare yosys pybind11 updates

[skip ci]

Author: donn

flake.nix

@@ -70,6 +70,7 @@
               callPythonPackage = lib.callPackageWith (pkgs' // pypkgs');
             in
             {
+              pybind11_3 = callPythonPackage ./nix/pybind11_3.nix { };
               cocotb = callPythonPackage ./nix/cocotb.nix {
                 ghdl =
                   if (lib.lists.any (el: el == pkgs'.system) pkgs'.ghdl-bin.meta.platforms) then

nix/patches/yosys/abc-editline.patch

@@ -0,0 +1,21 @@
+# SPDX-License-Identifier: MIT
+# Copyright (c) 2025 nix-eda Contributors
+{
+  lib,
+  fetchPypi,
+  buildPythonPackage,
+}:
+buildPythonPackage rec {
+  pname = "pybind11";
+  version = "3.0.1";
+  format = "wheel";
+
+  src = fetchPypi {
+    pname = "pybind11";
+    inherit version;
+    inherit format;
+    dist = "py3";
+    python = "py3";
+    sha256 = "sha256-qo8KpuCpTTtkrfw49WDzPxXlib4hdeEDwKM8a85V7ok=";
+  };
+}

nix/patches/yosys/new-bitwuzla.patch

@@ -30,8 +30,8 @@
   yosys-sby,
   python3,
   makeBinaryWrapper,
-  version ? "0.54",
-  sha256 ? "sha256-Km6layPDTAfd6oWnztJRdbiFkJeVT0YU06xWb/ewAms=",
+  version ? "0.58",
+  sha256 ? "sha256-bYcFIZRUk72mt0dN8wzpC+91nB+Xo0MXG6kmnzYURR4=",
 }:
 yosys.stdenv.mkDerivation (finalAttrs: {
   pname = "yosys-eqy";

nix/patches/yosys/plugin-search-dirs.patch

@@ -28,8 +28,8 @@
   boolector,
   z3,
   yices,
-  version ? "0.54",
-  sha256 ? "sha256-onVeK23KgCodEoaUtfh3R0MraaXuoNuQ2BAX5k4RNis=",
+  version ? "0.58",
+  sha256 ? "sha256-msQ+aqdp8i5KMLUABYU6vA5VBkI6G3zF06RrQzfJucY=",
 }:
 yosys.stdenv.mkDerivation (finalAttrs: {
   pname = "yosys-sby";

nix/pybind11_3.nix

@@ -37,9 +37,11 @@
   libffi,
   zlib,
   fetchurl,
+  fetchGitHubSnapshot,
   bash,
-  version ? "0.54",
-  sha256 ? "sha256-meKlZh6ZiiPHwQCvS7Y667lvE9XWgIaual8c6SDpeDw=",
+  version ? "0.59",
+  rev ? "e86797f0297ef75826cebdd0e6f4cc51b7c77e0a",
+  sha256 ? "sha256-08ZxWgYF+orLX6l97BBdYqAJ13Iq0gSex01Zfd8BPzE=",
   darwin, # To fix codesigning issue for pyosys
   # For environments
   yosys,
@@ -54,6 +56,8 @@ let
   };
   yosys-python3-env = python3.withPackages (
     ps: with ps; [
+      cxxheaderparser
+      pybind11_3
       click
       setuptools
       wheel
@@ -71,13 +75,29 @@ let
       "python"
     ];
 
-    src = fetchurl {
-      url = "https://github.com/YosysHQ/yosys/releases/download/v${version}/yosys.tar.gz";
-      inherit sha256;
-    };
+    src =
+      if rev != null then
+        fetchGitHubSnapshot {
+          owner = "yosyshq";
+          repo = "yosys";
+          inherit rev;
+          hash = sha256;
+        }
+      else
+        fetchurl {
+          url = "https://github.com/YosysHQ/yosys/releases/download/v${version}/yosys.tar.gz";
+          inherit sha256;
+        };
 
     unpackPhase = ''
-      tar -xzvC . -f ${finalAttrs.src}
+      runHook preUnpack
+      if [ -d ${finalAttrs.src} ]; then
+        cp -r ${finalAttrs.src}/* .
+        chmod u+w -R .
+      else
+        tar -xzvC . -f ${finalAttrs.src} --strip-components=1
+      fi
+      runHook postUnpack
     '';
 
     nativeBuildInputs = [
@@ -92,7 +112,6 @@ let
       libbsd
       libffi
       zlib
-      boost-python
     ];
 
     buildInputs = [
@@ -121,15 +140,15 @@ let
           postBuild = ''
             cat <<SCRIPT > $out/bin/with_yosys_plugin_env
             #!${bash}/bin/bash
-            export NIX_YOSYS_PLUGIN_DIRS='$out/share/yosys/plugins'
+            export YOSYS_PLUGIN_PATH='$out/share/yosys/plugins'
             exec "\$@"
             SCRIPT
             chmod +x $out/bin/with_yosys_plugin_env
             cp $out/bin/yosys $out/bin/yosys_with_plugins
             wrapProgram $out/bin/yosys \
-              --set NIX_YOSYS_PLUGIN_DIRS $out/share/yosys/plugins
+              --suffix YOSYS_PLUGIN_PATH : $out/share/yosys/plugins
             wrapProgram $out/bin/yosys_with_plugins \
-              --set NIX_YOSYS_PLUGIN_DIRS $out/share/yosys/plugins \
+              --suffix YOSYS_PLUGIN_PATH : $out/share/yosys/plugins \
               ${module_flags}
           '';
           inherit (yosys) passthru;
@@ -153,11 +172,6 @@ let
       "ENABLE_YOSYS=1"
       "ENABLE_PYOSYS=1"
       "PYTHON_DESTDIR=${placeholder "python"}/${site-packages}"
-      "BOOST_PYTHON_LIB=${boost-python}/lib/libboost_${python3.pythonAttr}${clangStdenv.hostPlatform.extensions.sharedLibrary}"
-    ];
-
-    patches = [
-      ./patches/yosys/plugin-search-dirs.patch
     ];
 
     postPatch = ''