kmc 3.2.4 (#1839)

Formula/kmc.rb

@@ -2,25 +2,36 @@ class Kmc < Formula
   # cite Deorowicz_2015: "https://doi.org/10.1093/bioinformatics/btv022"
   desc "Fast and frugal disk based k-mer counter"
   homepage "https://github.com/refresh-bio/KMC"
-  url "https://github.com/refresh-bio/KMC/archive/refs/tags/v3.2.1.tar.gz"
-  sha256 "7db333091a754508163a097c41720cf32a80abe160bef60f3fc82c8da1d67896"
-  head "https://github.com/marekkokot/KMC.git"
+  url "https://github.com/marekkokot/KMC.git",
+  tag:      "v3.2.4",
+  revision: "d6c24dc88010508336d824bbffbf1ef3f49fddf8"
+  head "https://github.com/marekkokot/KMC.git", branch: "master"
 
   bottle do
     root_url "https://ghcr.io/v2/brewsci/bio"
     sha256 cellar: :any,                 big_sur:      "79dc862a0ee19b5617e021b2f74b3168144bd7951c99eaeb524994b65fee771d"
     sha256 cellar: :any_skip_relocation, x86_64_linux: "cb51b8cbbedfba92900e56910d4b8ecd6754891dcdc1a7a0d47d6335ace73076"
   end
 
+  depends_on "pybind11" => :build
   depends_on "gcc"
-  uses_from_macos "bzip2"
   uses_from_macos "zlib"
 
-  # Fix error: 'ext/algorithm' file not found
-  fails_with :clang
+  fails_with gcc: "11"
 
   def install
-    args = %W[CC=#{ENV.cxx} KMC_BIN_DIR=#{bin}]
+    if OS.mac?
+      inreplace "Makefile" do |s|
+        s.gsub! "-fsigned-char", "-fsigned-char -Wno-deprecated-declarations"
+        s.gsub! "-static-libgcc -static-libstdc++", "-static-libgcc -static-libstdc++ -stdlib=libstdc++ -lstdc++"
+      end
+    else
+      # On Linux, we need to link against libstdc++
+      inreplace "Makefile", "-static -Wl,", "-lstdc++ -Wl,"
+    end
+    gcc_major_ver = Formula["gcc"].any_installed_version.major
+    cc = Formula["gcc"].opt_bin/"gcc-#{gcc_major_ver}"
+    args = %W[CC=#{cc} KMC_BIN_DIR=#{bin}]
     system "make", *args, "kmc", "kmc_dump", "kmc_tools"
     bin.install Dir["bin/kmc*"]
     doc.install Dir["*.pdf"]