Merge staging-next into staging

23 files changed, 288 insertions, 383 deletions

diff --git a/pkgs/development/compilers/graalvm/community-edition/buildGraalvm.nix b/pkgs/development/compilers/graalvm/community-edition/buildGraalvm.nix
index 858d7443ff626..34ed06e1de123 100644
--- a/pkgs/development/compilers/graalvm/community-edition/buildGraalvm.nix
+++ b/pkgs/development/compilers/graalvm/community-edition/buildGraalvm.nix
@@ -107,7 +107,7 @@ let
       ++ lib.optional stdenv.isLinux autoPatchelfHook;
 
     propagatedBuildInputs = [ setJavaClassPath zlib ]
-      ++ lib.optional stdenv.isDarwin darwin.apple_sdk.frameworks.Foundation;
+      ++ lib.optional stdenv.isDarwin darwin.apple_sdk_11_0.frameworks.Foundation;
 
     buildInputs = lib.optionals stdenv.isLinux [
       alsa-lib # libasound.so wanted by lib/libjsound.so
@@ -165,33 +165,27 @@ let
       echo "Testing GraalVM"
       $out/bin/java -XX:+UnlockExperimentalVMOptions -XX:+EnableJVMCI -XX:+UseJVMCICompiler HelloWorld | fgrep 'Hello World'
 
-      # Workaround GraalVM issue where the builder does not have access to the
-      # environment variables since 21.0.0
-      # Only needed for native-image tests
-      # https://github.com/oracle/graal/pull/6095
-      # https://github.com/oracle/graal/pull/6095
-      # https://github.com/oracle/graal/issues/7502
-      export NATIVE_IMAGE_DEPRECATED_BUILDER_SANITATION="true";
+      extraNativeImageArgs="$(export -p | sed -n 's/^declare -x \([^=]\+\)=.*$/ -E\1/p' | tr -d \\n)"
 
       echo "Ahead-Of-Time compilation"
-      $out/bin/native-image -H:+UnlockExperimentalVMOptions -H:-CheckToolchain -H:+ReportExceptionStackTraces HelloWorld
+      $out/bin/native-image -H:+UnlockExperimentalVMOptions -H:-CheckToolchain -H:+ReportExceptionStackTraces -march=compatibility $extraNativeImageArgs HelloWorld
       ./helloworld | fgrep 'Hello World'
 
       ${# --static is only available in Linux
       lib.optionalString (stdenv.isLinux && !useMusl) ''
         echo "Ahead-Of-Time compilation with -H:+StaticExecutableWithDynamicLibC"
-        $out/bin/native-image -H:+UnlockExperimentalVMOptions -H:+StaticExecutableWithDynamicLibC HelloWorld
+        $out/bin/native-image -H:+UnlockExperimentalVMOptions -H:+StaticExecutableWithDynamicLibC -march=compatibility $extraNativeImageArgs HelloWorld
         ./helloworld | fgrep 'Hello World'
 
         echo "Ahead-Of-Time compilation with --static"
-        $out/bin/native-image --static HelloWorld
+        $out/bin/native-image $extraNativeImageArgs -march=compatibility --static HelloWorld
         ./helloworld | fgrep 'Hello World'
       ''}
 
       ${# --static is only available in Linux
       lib.optionalString (stdenv.isLinux && useMusl) ''
         echo "Ahead-Of-Time compilation with --static and --libc=musl"
-        $out/bin/native-image --static HelloWorld --libc=musl
+        $out/bin/native-image $extraNativeImageArgs -march=compatibility --libc=musl --static HelloWorld
         ./helloworld | fgrep 'Hello World'
       ''}
 
diff --git a/pkgs/development/compilers/graalvm/community-edition/default.nix b/pkgs/development/compilers/graalvm/community-edition/default.nix
index a29a81783c9cf..bfc9c729689c4 100644
--- a/pkgs/development/compilers/graalvm/community-edition/default.nix
+++ b/pkgs/development/compilers/graalvm/community-edition/default.nix
@@ -1,23 +1,28 @@
 { lib
-, stdenv
-, callPackage
-, fetchurl
+, pkgs
 }:
 
+lib.makeScope pkgs.newScope (self:
 {
-  buildGraalvm = callPackage ./buildGraalvm.nix;
+  stdenv =
+    if pkgs.stdenv.isDarwin then
+      pkgs.darwin.apple_sdk_11_0.stdenv
+    else
+      pkgs.stdenv;
 
-  buildGraalvmProduct = callPackage ./buildGraalvmProduct.nix;
+  buildGraalvm = self.callPackage ./buildGraalvm.nix;
 
-  graalvm-ce = callPackage ./graalvm-ce { };
+  buildGraalvmProduct = self.callPackage ./buildGraalvmProduct.nix;
 
-  graalvm-ce-musl = callPackage ./graalvm-ce { useMusl = true; };
+  graalvm-ce = self.callPackage ./graalvm-ce { };
 
-  graaljs = callPackage ./graaljs { };
+  graalvm-ce-musl = self.callPackage ./graalvm-ce { useMusl = true; };
 
-  graalnodejs = callPackage ./graalnodejs { };
+  graaljs = self.callPackage ./graaljs { };
 
-  graalpy = callPackage ./graalpy { };
+  graalnodejs = self.callPackage ./graalnodejs { };
 
-  truffleruby = callPackage ./truffleruby { };
-}
+  graalpy = self.callPackage ./graalpy { };
+
+  truffleruby = self.callPackage ./truffleruby { };
+})
diff --git a/pkgs/development/gnuradio-modules/osmosdr/default.nix b/pkgs/development/gnuradio-modules/osmosdr/default.nix
index 8e46ac561493d..053d0a8e99f17 100644
--- a/pkgs/development/gnuradio-modules/osmosdr/default.nix
+++ b/pkgs/development/gnuradio-modules/osmosdr/default.nix
@@ -33,7 +33,7 @@ let
     "3.10" = "0.2.4";
   }.${gnuradio.versionAttr.major};
   src = fetchgit {
-    url = "git://git.osmocom.org/gr-osmosdr";
+    url = "https://gitea.osmocom.org/sdr/gr-osmosdr";
     rev = "v${version}";
     sha256 = {
       "3.7" = "0bf9bnc1c3c4yqqqgmg3nhygj6rcfmyk6pybi27f7461d2cw1drv";
diff --git a/pkgs/development/libraries/fflas-ffpack/default.nix b/pkgs/development/libraries/fflas-ffpack/default.nix
index 25bab6645e076..65c29f9319ceb 100644
--- a/pkgs/development/libraries/fflas-ffpack/default.nix
+++ b/pkgs/development/libraries/fflas-ffpack/default.nix
@@ -50,7 +50,6 @@ stdenv.mkDerivation rec {
   doCheck = true;
 
   meta = with lib; {
-    broken = stdenv.isDarwin;
     description = "Finite Field Linear Algebra Subroutines";
     mainProgram = "fflas-ffpack-config";
     license = licenses.lgpl21Plus;
diff --git a/pkgs/development/libraries/flint/3.nix b/pkgs/development/libraries/flint/3.nix
index b8b8c2d8ec7d3..60321984d3165 100644
--- a/pkgs/development/libraries/flint/3.nix
+++ b/pkgs/development/libraries/flint/3.nix
@@ -1,5 +1,6 @@
 { lib
 , stdenv
+, fetchpatch
 , fetchurl
 , gmp
 , mpfr
@@ -24,6 +25,13 @@ stdenv.mkDerivation rec {
     sha256 = "sha256-ezEaAFA6hjiB64F32+uEMi8pOZ89fXLzsaTJuh1XlLQ=";
   };
 
+  patches = [
+    (fetchpatch {
+      url = "https://github.com/flintlib/flint/commit/e7d005c369754243cba32bd782ea2a5fc874fde5.diff";
+      hash = "sha256-IqEtYEpNVXfoTeerh/0ig+eDqUpAlGdBB3uO8ShYh3o=";
+    })
+  ];
+
   nativeBuildInputs = [
     autoconf
     automake
diff --git a/pkgs/development/libraries/fplll/default.nix b/pkgs/development/libraries/fplll/default.nix
index ab74a09d07952..5e2268199496b 100644
--- a/pkgs/development/libraries/fplll/default.nix
+++ b/pkgs/development/libraries/fplll/default.nix
@@ -1,5 +1,6 @@
 { lib, stdenv
 , fetchFromGitHub
+, fetchpatch
 , pkg-config
 , gettext
 , autoreconfHook
@@ -18,6 +19,13 @@ stdenv.mkDerivation rec {
     sha256 = "sha256-taSS7jpVyjVfNe6kSuUDXMD2PgKmtG64V5MjZyQzorI=";
   };
 
+  patches = [
+    (fetchpatch {
+      url = "https://github.com/fplll/fplll/commit/317cf70893eebfb2625da12e5377189908c36240.diff";
+      sha256 = "sha256-GbYSolBgv/he4QzjuRFdg93wHJABVHvA9x3PjpJTSRE=";
+    })
+  ];
+
   nativeBuildInputs = [
     pkg-config
     gettext
diff --git a/pkgs/development/libraries/givaro/default.nix b/pkgs/development/libraries/givaro/default.nix
index a7b1eaa43831a..aca83ec4b8d68 100644
--- a/pkgs/development/libraries/givaro/default.nix
+++ b/pkgs/development/libraries/givaro/default.nix
@@ -25,6 +25,11 @@ stdenv.mkDerivation rec {
       url = "https://github.com/linbox-team/givaro/commit/c7744bb133496cd7ac04688f345646d505e1bf52.patch";
       hash = "sha256-aAA5o8Va10v0Pqgcpx7qM0TAZiNQgXoR6N9xecj7tDA=";
     })
+    (fetchpatch {
+      name = "clang-16.patch";
+      url = "https://github.com/linbox-team/givaro/commit/a81d44b3b57c275bcb04ab00db79be02561deaa2.patch";
+      hash = "sha256-sSk+VWffoEjZRTJcHRISLHPyW6yuvI1u8knBOfxNUIE=";
+    })
   ];
 
   enableParallelBuilding = true;
diff --git a/pkgs/development/libraries/linbox/default.nix b/pkgs/development/libraries/linbox/default.nix
index 0997513f5a515..4d0158dbcbe3c 100644
--- a/pkgs/development/libraries/linbox/default.nix
+++ b/pkgs/development/libraries/linbox/default.nix
@@ -1,5 +1,6 @@
 { lib, stdenv
 , fetchFromGitHub
+, fetchpatch
 , autoreconfHook
 , givaro
 , pkg-config
@@ -23,6 +24,13 @@ stdenv.mkDerivation rec {
     sha256 = "sha256-mW84a98KPLqcHMjX3LIYTmVe0ngUdz6RJLpoDaAqKU8=";
   };
 
+  patches = [
+    (fetchpatch {
+      url = "https://github.com/linbox-team/linbox/commit/4be26e9ef0eaf36a9909e5008940e8bf7dc625b6.patch";
+      sha256 = "PX0Tik7blXOV2vHUq92xMxaADkNoNGiax4qrjQyGK6U=";
+    })
+  ];
+
   nativeBuildInputs = [
     autoreconfHook
     pkg-config
diff --git a/pkgs/development/libraries/openvino/default.nix b/pkgs/development/libraries/openvino/default.nix
index 186e1048823aa..a4ce0fe60c1e7 100644
--- a/pkgs/development/libraries/openvino/default.nix
+++ b/pkgs/development/libraries/openvino/default.nix
@@ -1,7 +1,6 @@
 { lib
 , gcc12Stdenv
 , fetchFromGitHub
-, fetchpatch2
 , fetchurl
 , cudaSupport ? opencv.cudaSupport or false
 
@@ -11,10 +10,10 @@
 , cmake
 , git
 , libarchive
+, patchelf
 , pkg-config
-, python
+, python3Packages
 , shellcheck
-, sphinx
 
 # runtime
 , flatbuffers
@@ -36,40 +35,34 @@ let
 
   stdenv = gcc12Stdenv;
 
-  # See GNA_VERSION in cmake/dependencies.cmake
-  gna_version = "03.05.00.2116";
-  gna = fetchurl {
-    url = "https://storage.openvinotoolkit.org/dependencies/gna/gna_${gna_version}.zip";
-    hash = "sha256-lgNQVncCvaFydqxMBg11JPt8587XhQBL2GHIH/K/4sU=";
-  };
-
   tbbbind_version = "2_5";
   tbbbind = fetchurl {
     url = "https://storage.openvinotoolkit.org/dependencies/thirdparty/linux/tbbbind_${tbbbind_version}_static_lin_v4.tgz";
     hash = "sha256-Tr8wJGUweV8Gb7lhbmcHxrF756ZdKdNRi1eKdp3VTuo=";
   };
+
+  python = python3Packages.python.withPackages (ps: with ps; [
+    cython
+    pybind11
+    setuptools
+    sphinx
+    wheel
+  ]);
+
 in
 
 stdenv.mkDerivation rec {
   pname = "openvino";
-  version = "2023.3.0";
+  version = "2024.0.0";
 
   src = fetchFromGitHub {
     owner = "openvinotoolkit";
     repo = "openvino";
     rev = "refs/tags/${version}";
     fetchSubmodules = true;
-    hash = "sha256-dXlQhar5gz+1iLmDYXUY0jZKh4rJ+khRpoZQphJXfcU=";
+    hash = "sha256-Xsrmc1EynkjgPgiQ+ESyVJRJT9Afqyob0/uH+Is4TYA=";
   };
 
-  patches = [
-    (fetchpatch2 {
-      name = "enable-js-toggle.patch";
-      url = "https://github.com/openvinotoolkit/openvino/commit/0a8f1383826d949c497fe3d05fef9ad2b662fa7e.patch";
-      hash = "sha256-mQYunouPo3tRlD5Yp4EUth324ccNnVX8zmjPHvJBYKw=";
-    })
-  ];
-
   outputs = [
     "out"
     "python"
@@ -81,26 +74,15 @@ stdenv.mkDerivation rec {
     cmake
     git
     libarchive
+    patchelf
     pkg-config
-    (python.withPackages (ps: with ps; [
-      cython
-      pybind11
-      setuptools
-    ]))
+    python
     shellcheck
-    sphinx
   ] ++ lib.optionals cudaSupport [
     cudaPackages.cuda_nvcc
   ];
 
   postPatch = ''
-    mkdir -p temp/gna_${gna_version}
-    pushd temp/
-    bsdtar -xf ${gna}
-    autoPatchelf gna_${gna_version}
-    echo "${gna.url}" > gna_${gna_version}/ie_dependency.info
-    popd
-
     mkdir -p temp/tbbbind_${tbbbind_version}
     pushd temp/tbbbind_${tbbbind_version}
     bsdtar -xf ${tbbbind}
@@ -116,6 +98,7 @@ stdenv.mkDerivation rec {
     "-DCMAKE_PREFIX_PATH:PATH=${placeholder "out"}"
     "-DOpenCV_DIR=${opencv}/lib/cmake/opencv4/"
     "-DProtobuf_LIBRARIES=${protobuf}/lib/libprotobuf${stdenv.hostPlatform.extensions.sharedLibrary}"
+    "-DPython_EXECUTABLE=${python.interpreter}"
 
     (cmakeBool "CMAKE_VERBOSE_MAKEFILE" true)
     (cmakeBool "NCC_SYLE" false)
@@ -126,7 +109,6 @@ stdenv.mkDerivation rec {
 
     # features
     (cmakeBool "ENABLE_INTEL_CPU" true)
-    (cmakeBool "ENABLE_INTEL_GNA" true)
     (cmakeBool "ENABLE_JS" false)
     (cmakeBool "ENABLE_LTO" true)
     (cmakeBool "ENABLE_ONEDNN_FOR_GPU" false)
diff --git a/pkgs/development/libraries/qt-6/fetch.sh b/pkgs/development/libraries/qt-6/fetch.sh
index d7ef146a19575..52c6fb5f1b2e7 100644
--- a/pkgs/development/libraries/qt-6/fetch.sh
+++ b/pkgs/development/libraries/qt-6/fetch.sh
@@ -1 +1 @@
-WGET_ARGS=( https://download.qt.io/official_releases/qt/6.6/6.6.2/submodules/ -A '*.tar.xz' )
+WGET_ARGS=( https://download.qt.io/official_releases/qt/6.6/6.6.3/submodules/ -A '*.tar.xz' )
diff --git a/pkgs/development/libraries/qt-6/modules/qtbase.nix b/pkgs/development/libraries/qt-6/modules/qtbase.nix
index c223a22363532..a14028e1259ad 100644
--- a/pkgs/development/libraries/qt-6/modules/qtbase.nix
+++ b/pkgs/development/libraries/qt-6/modules/qtbase.nix
@@ -211,10 +211,7 @@ stdenv.mkDerivation rec {
 
   inherit patches;
 
-  # https://bugreports.qt.io/browse/QTBUG-97568
-  postPatch = ''
-    substituteInPlace src/corelib/CMakeLists.txt --replace-fail "/bin/ls" "${buildPackages.coreutils}/bin/ls"
-  '' + lib.optionalString stdenv.hostPlatform.isDarwin ''
+  postPatch = lib.optionalString stdenv.hostPlatform.isDarwin ''
     substituteInPlace cmake/QtPublicAppleHelpers.cmake --replace-fail "/usr/bin/xcrun" "${xcbuild}/bin/xcrun"
   '';
 
diff --git a/pkgs/development/libraries/qt-6/srcs.nix b/pkgs/development/libraries/qt-6/srcs.nix
index 5fef072f39909..5edd42d3004ea 100644
--- a/pkgs/development/libraries/qt-6/srcs.nix
+++ b/pkgs/development/libraries/qt-6/srcs.nix
@@ -1,318 +1,318 @@
 # DO NOT EDIT! This file is generated automatically.
-# Command: ./maintainers/scripts/fetch-kde-qt.sh pkgs/development/libraries/qt-6/fetch.sh
+# Command: ./maintainers/scripts/fetch-kde-qt.sh pkgs/development/libraries/qt-6/
 { fetchurl, mirror }:
 
 {
   qt3d = {
-    version = "6.6.2";
+    version = "6.6.3";
     src = fetchurl {
-      url = "${mirror}/official_releases/qt/6.6/6.6.2/submodules/qt3d-everywhere-src-6.6.2.tar.xz";
-      sha256 = "10l5ldw8g8m1ig3hh78pwg749xqf2gw9vsi8p67gbkanmipfqx4i";
-      name = "qt3d-everywhere-src-6.6.2.tar.xz";
+      url = "${mirror}/official_releases/qt/6.6/6.6.3/submodules/qt3d-everywhere-src-6.6.3.tar.xz";
+      sha256 = "0v6zprw9r4z4inj7mg364n959c6japklm7ji2952nm3i01zp8jd5";
+      name = "qt3d-everywhere-src-6.6.3.tar.xz";
     };
   };
   qt5compat = {
-    version = "6.6.2";
+    version = "6.6.3";
     src = fetchurl {
-      url = "${mirror}/official_releases/qt/6.6/6.6.2/submodules/qt5compat-everywhere-src-6.6.2.tar.xz";
-      sha256 = "0rqr34lqf4mjdgjj09wzlvkxfknz8arjl9p30xpqbr2qfsmhhyz0";
-      name = "qt5compat-everywhere-src-6.6.2.tar.xz";
+      url = "${mirror}/official_releases/qt/6.6/6.6.3/submodules/qt5compat-everywhere-src-6.6.3.tar.xz";
+      sha256 = "02zcrrh6rq5p6bqix5nk2h22rfqdrf4d0h7y4rva5zmbbr7czhk8";
+      name = "qt5compat-everywhere-src-6.6.3.tar.xz";
     };
   };
   qtactiveqt = {
-    version = "6.6.2";
+    version = "6.6.3";
     src = fetchurl {
-      url = "${mirror}/official_releases/qt/6.6/6.6.2/submodules/qtactiveqt-everywhere-src-6.6.2.tar.xz";
-      sha256 = "16vqb33s0dwxq1rrha81606fdwq1dz7az6mybgx18n7f081h3yl7";
-      name = "qtactiveqt-everywhere-src-6.6.2.tar.xz";
+      url = "${mirror}/official_releases/qt/6.6/6.6.3/submodules/qtactiveqt-everywhere-src-6.6.3.tar.xz";
+      sha256 = "0balhrmzmjrqn6h2r3rr00776vxhdpqzwhk9knrlvix8i1kr86x1";
+      name = "qtactiveqt-everywhere-src-6.6.3.tar.xz";
     };
   };
   qtbase = {
-    version = "6.6.2";
+    version = "6.6.3";
     src = fetchurl {
-      url = "${mirror}/official_releases/qt/6.6/6.6.2/submodules/qtbase-everywhere-src-6.6.2.tar.xz";
-      sha256 = "0yv78bwqzy975854h53rbiilsms62f3v02i3jqz7v8ajk1ml56xq";
-      name = "qtbase-everywhere-src-6.6.2.tar.xz";
+      url = "${mirror}/official_releases/qt/6.6/6.6.3/submodules/qtbase-everywhere-src-6.6.3.tar.xz";
+      sha256 = "0qklvzg242ilxw29jd2vsz6s8ni4dpraf4ghfa4dykhc705zv4q4";
+      name = "qtbase-everywhere-src-6.6.3.tar.xz";
     };
   };
   qtcharts = {
-    version = "6.6.2";
+    version = "6.6.3";
     src = fetchurl {
-      url = "${mirror}/official_releases/qt/6.6/6.6.2/submodules/qtcharts-everywhere-src-6.6.2.tar.xz";
-      sha256 = "1x7m87lxbza4ynf6dq7yshann6003302a5fxih5l5d07xri64j5i";
-      name = "qtcharts-everywhere-src-6.6.2.tar.xz";
+      url = "${mirror}/official_releases/qt/6.6/6.6.3/submodules/qtcharts-everywhere-src-6.6.3.tar.xz";
+      sha256 = "1rbz2nm8wrdf060cssvs69b5kqv0ybxjqw1clm5mdllg2j38i5jh";
+      name = "qtcharts-everywhere-src-6.6.3.tar.xz";
     };
   };
   qtconnectivity = {
-    version = "6.6.2";
+    version = "6.6.3";
     src = fetchurl {
-      url = "${mirror}/official_releases/qt/6.6/6.6.2/submodules/qtconnectivity-everywhere-src-6.6.2.tar.xz";
-      sha256 = "1dzsvs0hngrz6b66r9zb4al5a4r6xxfd29i8g3jqmvw3b0452vx3";
-      name = "qtconnectivity-everywhere-src-6.6.2.tar.xz";
+      url = "${mirror}/official_releases/qt/6.6/6.6.3/submodules/qtconnectivity-everywhere-src-6.6.3.tar.xz";
+      sha256 = "066mf4d6a81ywviwr8bvm1mpm2ykjzysvcc0v2x82h5bl28vl6h9";
+      name = "qtconnectivity-everywhere-src-6.6.3.tar.xz";
     };
   };
   qtdatavis3d = {
-    version = "6.6.2";
+    version = "6.6.3";
     src = fetchurl {
-      url = "${mirror}/official_releases/qt/6.6/6.6.2/submodules/qtdatavis3d-everywhere-src-6.6.2.tar.xz";
-      sha256 = "0iqw5afx8y29kjprn1hlz0zr0qwc9j0m7my75qf1av800hlnnjii";
-      name = "qtdatavis3d-everywhere-src-6.6.2.tar.xz";
+      url = "${mirror}/official_releases/qt/6.6/6.6.3/submodules/qtdatavis3d-everywhere-src-6.6.3.tar.xz";
+      sha256 = "1gyz83hkmjin3fr3brg00qchbb0awprwx99idysrc6chckj825wv";
+      name = "qtdatavis3d-everywhere-src-6.6.3.tar.xz";
     };
   };
   qtdeclarative = {
-    version = "6.6.2";
+    version = "6.6.3";
     src = fetchurl {
-      url = "${mirror}/official_releases/qt/6.6/6.6.2/submodules/qtdeclarative-everywhere-src-6.6.2.tar.xz";
-      sha256 = "0k6qndjvkkx3g8lr7f64xx86b3cwxzkgpl6fr6cp73s6qjkyk763";
-      name = "qtdeclarative-everywhere-src-6.6.2.tar.xz";
+      url = "${mirror}/official_releases/qt/6.6/6.6.3/submodules/qtdeclarative-everywhere-src-6.6.3.tar.xz";
+      sha256 = "1wwjlwjb3hnlpai4rrrdsm096a6ahb1izs3524r79jpjzhn7n805";
+      name = "qtdeclarative-everywhere-src-6.6.3.tar.xz";
     };
   };
   qtdoc = {
-    version = "6.6.2";
+    version = "6.6.3";
     src = fetchurl {
-      url = "${mirror}/official_releases/qt/6.6/6.6.2/submodules/qtdoc-everywhere-src-6.6.2.tar.xz";
-      sha256 = "0hvv40y2h7xa7wj2cqz2rrsvy1xf2l95199vmgx4q27wgmn1xixg";
-      name = "qtdoc-everywhere-src-6.6.2.tar.xz";
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-      sha256 = "15h3hniszfkxv2vnn3fnbgbar8wb41ypgn4b4iz4iy6csar8f7fn";
-      name = "qtwebengine-everywhere-src-6.6.2.tar.xz";
+      url = "${mirror}/official_releases/qt/6.6/6.6.3/submodules/qtwebengine-everywhere-src-6.6.3.tar.xz";
+      sha256 = "016qvbmdja2abajvsznnjdvblrmzgvs8s2dzlxws30hvna1xqavw";
+      name = "qtwebengine-everywhere-src-6.6.3.tar.xz";
     };
   };
   qtwebsockets = {
-    version = "6.6.2";
+    version = "6.6.3";
     src = fetchurl {
-      url = "${mirror}/official_releases/qt/6.6/6.6.2/submodules/qtwebsockets-everywhere-src-6.6.2.tar.xz";
-      sha256 = "1y9q8jmspxbfxf07jdcg4n8zwmchccyzp0z68fxr0hnvr2dymrn0";
-      name = "qtwebsockets-everywhere-src-6.6.2.tar.xz";
+      url = "${mirror}/official_releases/qt/6.6/6.6.3/submodules/qtwebsockets-everywhere-src-6.6.3.tar.xz";
+      sha256 = "0dm066lv3n97ril9iyd5xn8j13m6r7xp844aagj6dpclaxv83x0n";
+      name = "qtwebsockets-everywhere-src-6.6.3.tar.xz";
     };
   };
   qtwebview = {
-    version = "6.6.2";
+    version = "6.6.3";
     src = fetchurl {
-      url = "${mirror}/official_releases/qt/6.6/6.6.2/submodules/qtwebview-everywhere-src-6.6.2.tar.xz";
-      sha256 = "0z3p1g26yg3dr3hhavwd5wz9b8yi838xj4s57068wykd80v145wb";
-      name = "qtwebview-everywhere-src-6.6.2.tar.xz";
+      url = "${mirror}/official_releases/qt/6.6/6.6.3/submodules/qtwebview-everywhere-src-6.6.3.tar.xz";
+      sha256 = "00jcxzi9wcbviscn5y0h0mkbac88lpjammg3zvfvjih7avgn6r10";
+      name = "qtwebview-everywhere-src-6.6.3.tar.xz";
     };
   };
 }
diff --git a/pkgs/development/libraries/science/math/flintqs/default.nix b/pkgs/development/libraries/science/math/flintqs/default.nix
deleted file mode 100644
index c5426ed67fc7f..0000000000000
--- a/pkgs/development/libraries/science/math/flintqs/default.nix
+++ /dev/null
@@ -1,40 +0,0 @@
-{ lib, stdenv
-, fetchFromGitHub
-, autoreconfHook
-, gmp
-}:
-
-stdenv.mkDerivation rec {
-  version = "1.0";
-  pname = "flintqs";
-
-  src = fetchFromGitHub {
-    owner = "sagemath";
-    repo = "FlintQS";
-    rev = "v${version}";
-    sha256 = "1f0lnayz6j6qgasx8pbq61d2fqam0wwhsmh6h15l4vq58l1vvbwj";
-  };
-
-  preAutoreconf = ''
-    touch ChangeLog
-  '';
-
-  buildInputs = [
-    gmp
-  ];
-
-  nativeBuildInputs = [
-    autoreconfHook
-  ];
-
-  doCheck = true;
-
-  meta = with lib; {
-    description = "Highly optimized multi-polynomial quadratic sieve for integer factorization";
-    homepage = "https://github.com/sagemath/FlintQS";
-    license = with licenses; [ gpl2 ];
-    maintainers = teams.sage.members;
-    mainProgram = "QuadraticSieve";
-    platforms = platforms.all;
-  };
-}
diff --git a/pkgs/development/libraries/science/math/m4rie/default.nix b/pkgs/development/libraries/science/math/m4rie/default.nix
index 214f27046527e..ac513297f1590 100644
--- a/pkgs/development/libraries/science/math/m4rie/default.nix
+++ b/pkgs/development/libraries/science/math/m4rie/default.nix
@@ -21,6 +21,9 @@ stdenv.mkDerivation rec {
     m4ri
   ];
 
+  # does not compile correctly with -O2 on LLVM clang; see
+  # https://bitbucket.org/malb/m4rie/issues/23/trying-to-compile-on-apple-m1
+  makeFlags = [] ++ lib.optionals stdenv.isDarwin [ "CFLAGS=-O0" ];
   nativeBuildInputs = [
     autoreconfHook
   ];
@@ -35,7 +38,5 @@ stdenv.mkDerivation rec {
     license = licenses.gpl2Plus;
     maintainers = teams.sage.members;
     platforms = platforms.unix;
-    # never built on aarch64-darwin since first introduction in nixpkgs
-    broken = stdenv.isDarwin && stdenv.isAarch64;
   };
 }
diff --git a/pkgs/development/libraries/science/math/rubiks/default.nix b/pkgs/development/libraries/science/math/rubiks/default.nix
index 505457edd64f0..8f3fbe3451267 100644
--- a/pkgs/development/libraries/science/math/rubiks/default.nix
+++ b/pkgs/development/libraries/science/math/rubiks/default.nix
@@ -2,6 +2,7 @@
 , fetchurl
 , fetchpatch
 , coreutils
+, dos2unix
 }:
 
 stdenv.mkDerivation rec {
@@ -24,24 +25,54 @@ stdenv.mkDerivation rec {
     "PREFIX=$(out)"
   ];
 
+  nativeBuildInputs = [ dos2unix ];
+
+  prePatch = ''
+    find ./dietz/ -type f -exec dos2unix {} \;
+  '';
+
   patches = [
     # Fix makefiles which use all the variables in all the wrong ways and
     # hardcode values for some variables.
     (fetchpatch {
-      url = "https://raw.githubusercontent.com/sagemath/sage/07d6c37d18811e2b377a9689790a7c5e24da16ba/build/pkgs/rubiks/patches/dietz-cu2-Makefile.patch";
-      sha256 = "1ry3w1mk9q4jqd91zlaa1bdiiplld4hpfjaldbhlmzlgrrc99qmq";
+      url = "https://raw.githubusercontent.com/sagemath/sage/2a9a4267f93588cf33119cbacc032ed9acc433e5/build/pkgs/rubiks/patches/dietz-cu2-Makefile.patch";
+      sha256 = "bRU7MJ/6BgCp2PUqZOragJhm38Q3E8ShStXQIYwIjvw=";
+    })
+    (fetchpatch {
+      url = "https://raw.githubusercontent.com/sagemath/sage/2a9a4267f93588cf33119cbacc032ed9acc433e5/build/pkgs/rubiks/patches/dietz-mcube-Makefile.patch";
+      sha256 = "f53z4DogXKax1vUNkraOTt3TQ4bvT7CdQK/hOaaBS38=";
+    })
+    (fetchpatch {
+      url = "https://raw.githubusercontent.com/sagemath/sage/2a9a4267f93588cf33119cbacc032ed9acc433e5/build/pkgs/rubiks/patches/dietz-solver-Makefile.patch";
+      sha256 = "7gMC8y9elyIy2KvXYcp7YjPBNqn9PVhUle+/GrYAAdE=";
+    })
+    (fetchpatch {
+      url = "https://raw.githubusercontent.com/sagemath/sage/2a9a4267f93588cf33119cbacc032ed9acc433e5/build/pkgs/rubiks/patches/reid-Makefile.patch";
+      sha256 = "rp3SYtx02vVBtSlg1vJpdIoXNcdBNKDLCLqLAKwOYeQ=";
+    })
+    (fetchpatch {
+      url = "https://raw.githubusercontent.com/sagemath/sage/2a9a4267f93588cf33119cbacc032ed9acc433e5/build/pkgs/rubiks/patches/fedora-1-rubiks-includes.patch";
+      sha256 = "QYJ1KQ73HTEGY/beMVbcU215g/B8rHDjYD1YM2WZ7sk=";
+    })
+    (fetchpatch {
+      url = "https://raw.githubusercontent.com/sagemath/sage/2a9a4267f93588cf33119cbacc032ed9acc433e5/build/pkgs/rubiks/patches/fedora-2-rubiks-ansi-c.patch";
+      sha256 = "Rnu7uphE9URxnbg2K8mkymnB61magweH+WxVWR9JC4s=";
+    })
+    (fetchpatch {
+      url = "https://raw.githubusercontent.com/sagemath/sage/2a9a4267f93588cf33119cbacc032ed9acc433e5/build/pkgs/rubiks/patches/fedora-3-rubiks-prototypes.patch";
+      sha256 = "Wi038g+y7No1TNMiITtAdipjRi0+g6h0Sspslm5rZGU=";
     })
     (fetchpatch {
-      url = "https://raw.githubusercontent.com/sagemath/sage/07d6c37d18811e2b377a9689790a7c5e24da16ba/build/pkgs/rubiks/patches/dietz-mcube-Makefile.patch";
-      sha256 = "0zsbh6k3kqdg82fv0kzghr1x7pafisv943gmssqscp107bhg77bz";
+      url = "https://raw.githubusercontent.com/sagemath/sage/2a9a4267f93588cf33119cbacc032ed9acc433e5/build/pkgs/rubiks/patches/fedora-4-rubiks-longtype.patch";
+      sha256 = "6pNuxFM69CZ/TQGZfHXLlCN5g5lf3RiYYZKzMvLJwkw=";
     })
     (fetchpatch {
-      url = "https://raw.githubusercontent.com/sagemath/sage/07d6c37d18811e2b377a9689790a7c5e24da16ba/build/pkgs/rubiks/patches/dietz-solver-Makefile.patch";
-      sha256 = "0vhw70ylnmydgjhwx8jjlb2slccj4pfqn6vzirkyz1wp8apsmfhp";
+      url = "https://raw.githubusercontent.com/sagemath/sage/2a9a4267f93588cf33119cbacc032ed9acc433e5/build/pkgs/rubiks/patches/fedora-5-rubiks-signed.patch";
+      sha256 = "CCGXBMYvSjTm4YKQZAQMi6pWGjyHDYYQzdMZDSW2vFE=";
     })
     (fetchpatch {
-      url = "https://raw.githubusercontent.com/sagemath/sage/07d6c37d18811e2b377a9689790a7c5e24da16ba/build/pkgs/rubiks/patches/reid-Makefile.patch";
-      sha256 = "1r311sn012xs135s0d21qwsig2kld7rdcq19nm0zbnklviid57df";
+      url = "https://raw.githubusercontent.com/sagemath/sage/2a9a4267f93588cf33119cbacc032ed9acc433e5/build/pkgs/rubiks/patches/fedora-6-rubiks-attributes.patch";
+      sha256 = "RhlzMb33iaLfeBoF7Y0LIgEzOB/EC+AoWMSkRPCICaU=";
     })
   ];
 
diff --git a/pkgs/development/libraries/tachyon/default.nix b/pkgs/development/libraries/tachyon/default.nix
index 02fb1fbc1324e..2efee140a7e3c 100644
--- a/pkgs/development/libraries/tachyon/default.nix
+++ b/pkgs/development/libraries/tachyon/default.nix
@@ -37,6 +37,7 @@ stdenv.mkDerivation rec {
          # see https://github.com/NixOS/nixpkgs/pull/117465
          if stdenv.hostPlatform.system == "aarch64-linux"  then "linux-arm"     else
          if stdenv.hostPlatform.system == "armv7l-linux"   then "linux-arm"     else
+         if stdenv.hostPlatform.system == "aarch64-darwin" then "macosx"        else
          if stdenv.hostPlatform.system == "x86_64-darwin"  then "macosx-thr"    else
          if stdenv.hostPlatform.system == "i686-darwin"    then "macosx-64-thr" else
          if stdenv.hostPlatform.system == "i686-cygwin"    then "win32"         else
diff --git a/pkgs/development/python-modules/es-client/default.nix b/pkgs/development/python-modules/es-client/default.nix
index f5b16097c26f4..0a1b0bad5ad67 100644
--- a/pkgs/development/python-modules/es-client/default.nix
+++ b/pkgs/development/python-modules/es-client/default.nix
@@ -20,16 +20,16 @@
 
 buildPythonPackage rec {
   pname = "es-client";
-  version = "8.12.5";
+  version = "8.12.8";
   pyproject = true;
 
-  disabled = pythonOlder "3.7";
+  disabled = pythonOlder "3.8";
 
   src = fetchFromGitHub {
     owner = "untergeek";
     repo = "es_client";
     rev = "refs/tags/v${version}";
-    hash = "sha256-gaeNIxHnNulUOGhYHf9dIgBSh2rJIdsYdpPT8OTyEdg=";
+    hash = "sha256-qv06zb3hIK/TeOZwtMXrV+n8mYSA/UKiyHvRyKEvZkQ=";
   };
 
   pythonRelaxDeps = true;
diff --git a/pkgs/development/python-modules/fpylll/default.nix b/pkgs/development/python-modules/fpylll/default.nix
index 54d3d8f34f795..97885a443ff02 100644
--- a/pkgs/development/python-modules/fpylll/default.nix
+++ b/pkgs/development/python-modules/fpylll/default.nix
@@ -36,6 +36,10 @@ buildPythonPackage rec {
       url = "https://github.com/fplll/fpylll/commit/fc432b21fa7e4b9891f5b761b3539989eb958f2b.diff";
       hash = "sha256-+UidQ5xnlmjeVeVvR4J2zDzAuXP5LUPXCh4RP4o9oGA=";
     })
+    (fetchpatch {
+      url = "https://github.com/fplll/fpylll/commit/cece9c9b182dc3ac2c9121549cb427ccf4c4a9fe.diff";
+      hash = "sha256-epJb8gorQ7gEEylZ2yZFdM9+EZ4ys9mUUUPiJ2D0VOM=";
+    })
   ];
 
   nativeBuildInputs = [
diff --git a/pkgs/development/python-modules/openvino/default.nix b/pkgs/development/python-modules/openvino/default.nix
index 20f47eb666ef8..660e6c41c014a 100644
--- a/pkgs/development/python-modules/openvino/default.nix
+++ b/pkgs/development/python-modules/openvino/default.nix
@@ -26,7 +26,6 @@ buildPythonPackage {
   '';
 
   pythonImportsCheck = [
-    "ngraph"
     "openvino"
     "openvino.runtime"
   ];
diff --git a/pkgs/development/python-modules/reptor/default.nix b/pkgs/development/python-modules/reptor/default.nix
index d31cbc667510a..013008581a531 100644
--- a/pkgs/development/python-modules/reptor/default.nix
+++ b/pkgs/development/python-modules/reptor/default.nix
@@ -32,7 +32,7 @@
 
 buildPythonPackage rec {
   pname = "reptor";
-  version = "0.13";
+  version = "0.14";
   pyproject = true;
 
   disabled = pythonOlder "3.8";
@@ -41,17 +41,17 @@ buildPythonPackage rec {
     owner = "Syslifters";
     repo = "reptor";
     rev = "refs/tags/${version}";
-    hash = "sha256-7jFS3GCaPeGBBxB++XTtIYh+m0uXTm5NHuLeIen0KYc=";
+    hash = "sha256-XZiFVIUyLVVr3ZraOAuXs+shl4vk3S8OJHNHV4p10YY=";
   };
 
   pythonRelaxDeps = true;
 
-  nativeBuildInputs = [
+  build-system = [
     pythonRelaxDepsHook
     setuptools
   ];
 
-  propagatedBuildInputs = [
+  dependencies = [
     asgiref
     certifi
     charset-normalizer
diff --git a/pkgs/development/python-modules/rpyc4/default.nix b/pkgs/development/python-modules/rpyc4/default.nix
index 1c543166d38a8..c883ebef4dc67 100644
--- a/pkgs/development/python-modules/rpyc4/default.nix
+++ b/pkgs/development/python-modules/rpyc4/default.nix
@@ -14,7 +14,7 @@ buildPythonPackage rec {
   pname = "rpyc4";
   # Pinned version for linien, see also:
   # https://github.com/linien-org/pyrp3/pull/10#discussion_r1302816237
-  version = "6.0.0";
+  version = "4.1.5";
   format = "pyproject";
 
   # Since this is an outdated version, upstream might have fixed the
@@ -24,8 +24,8 @@ buildPythonPackage rec {
   src = fetchFromGitHub {
     owner = "tomerfiliba";
     repo = "rpyc";
-    rev = "refs/tags/${version}";
-    hash = "sha256-BvXEXZlVbOmKBwnSBCDksUkbT7JPcMX48KZe/Gd5Y8Q=";
+    rev = version;
+    hash = "sha256-8NOcXZDR3w0TNj1+LZ7lzQAt7yDgspjOp2zk1bsbVls=";
   };
 
   nativeBuildInputs = [
diff --git a/pkgs/development/tools/java/jextract/default.nix b/pkgs/development/tools/java/jextract/default.nix
deleted file mode 100644
index 45879c8c64cc9..0000000000000
--- a/pkgs/development/tools/java/jextract/default.nix
+++ /dev/null
@@ -1,97 +0,0 @@
-{ lib
-, stdenv
-, fetchFromGitHub
-, emptyDirectory
-, writeText
-, makeWrapper
-, gradle
-, jdk21
-, llvmPackages
-}:
-
-let
-  gradleInit = writeText "init.gradle" ''
-    logger.lifecycle 'Replacing Maven repositories with empty directory...'
-    gradle.projectsLoaded {
-      rootProject.allprojects {
-        buildscript {
-          repositories {
-            clear()
-            maven { url '${emptyDirectory}' }
-          }
-        }
-        repositories {
-          clear()
-          maven { url '${emptyDirectory}' }
-        }
-      }
-    }
-    settingsEvaluated { settings ->
-      settings.pluginManagement {
-        repositories {
-          maven { url '${emptyDirectory}' }
-        }
-      }
-    }
-  '';
-in
-
-stdenv.mkDerivation {
-  pname = "jextract";
-  version = "unstable-2023-11-27";
-
-  src = fetchFromGitHub {
-    owner = "openjdk";
-    repo = "jextract";
-    rev = "8730fcf05c229d035b0db52ee6bd82622e9d03e9"; # Update jextract 21 with latest fixes
-    hash = "sha256-Wct/yx5C0EjDtDyXNYDH5LRmrfq7islXbPVIGBR6x5Y=";
-  };
-
-  nativeBuildInputs = [
-    gradle
-    makeWrapper
-  ];
-
-  env = {
-    ORG_GRADLE_PROJECT_llvm_home = llvmPackages.libclang.lib;
-    ORG_GRADLE_PROJECT_jdk21_home = jdk21;
-  };
-
-  buildPhase = ''
-    runHook preBuild
-
-    export GRADLE_USER_HOME=$(mktemp -d)
-    gradle --console plain --init-script "${gradleInit}" assemble
-
-    runHook postBuild
-  '';
-
-  doCheck = true;
-
-  checkPhase = ''
-    runHook preCheck
-    gradle --console plain --init-script "${gradleInit}" verify
-    runHook postCheck
-  '';
-
-  installPhase = ''
-    runHook preInstall
-
-    mkdir -p $out/opt/
-    cp -r ./build/jextract $out/opt/jextract
-
-    runHook postInstall
-  '';
-
-  postFixup = ''
-    makeWrapper "$out/opt/jextract/bin/jextract" "$out/bin/jextract"
-  '';
-
-  meta = with lib; {
-    description = "A tool which mechanically generates Java bindings from a native library headers";
-    mainProgram = "jextract";
-    homepage = "https://github.com/openjdk/jextract";
-    license = licenses.gpl2Only;
-    maintainers = with maintainers; [ sharzy ];
-  };
-}
diff --git a/pkgs/development/tools/ruff/default.nix b/pkgs/development/tools/ruff/default.nix
index 25ef6c14921de..bb804eae7d359 100644
--- a/pkgs/development/tools/ruff/default.nix
+++ b/pkgs/development/tools/ruff/default.nix
@@ -10,16 +10,16 @@
 
 rustPlatform.buildRustPackage rec {
   pname = "ruff";
-  version = "0.3.2";
+  version = "0.3.4";
 
   src = fetchFromGitHub {
     owner = "astral-sh";
     repo = "ruff";
     rev = "refs/tags/v${version}";
-    hash = "sha256-2Pt2HuDB9JLD9E1q0JH7jyVoc0II5uVL1l8pAod+9V4=";
+    hash = "sha256-P0k/0tWbhY2HaxI4QThxpHD48JUjtF/d3iU4MIFhdHI=";
   };
 
-  cargoHash = "sha256-njHpqWXFNdwenV58+VGznnqbaNK1GoGtHSTfKU2MRbs=";
+  cargoHash = "sha256-LckX8/c3Yg9i/0C2d0XSxxNJSpaVxmj2s8tkEUDhbmA=";
 
   nativeBuildInputs = [
     installShellFiles