From c9103d4ef705f49ab8a38eff9346888128b8d864 Mon Sep 17 00:00:00 2001
From: sbfnk <sebastian.funk@lshtm.ac.uk>
Date: Fri, 12 Jan 2018 10:24:50 +0000
Subject: [PATCH] libbi 1.3.0 (new formula)

Closes #22777.

Signed-off-by: FX Coudert <fxcoudert@gmail.com>
---
 Formula/libbi.rb | 133 +++++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 133 insertions(+)
 create mode 100644 Formula/libbi.rb

diff --git a/Formula/libbi.rb b/Formula/libbi.rb
new file mode 100644
index 0000000000..55f49d70ef
--- /dev/null
+++ b/Formula/libbi.rb
@@ -0,0 +1,133 @@
+class Libbi < Formula
+  desc "Bayesian state-space modelling on parallel computer hardware"
+  homepage "http://libbi.org"
+  url "https://github.com/libbi/LibBi/archive/1.3.0.tar.gz"
+  sha256 "0dd313dd71e72b2f16ca9074800fc2fa8bf585bec3b87a750ff27e467a9826d0"
+
+  depends_on "automake" => :run
+  depends_on "boost"
+  depends_on "gsl"
+  depends_on "netcdf"
+  depends_on "qrupdate"
+
+  resource "Test::Simple" do
+    url "https://www.cpan.org/authors/id/E/EX/EXODIST/Test-Simple-1.302120.tar.gz"
+    sha256 "c82360092d4dacd6e3248b613fa00053072fe9cf55d022f1e0f427f51d04346c"
+  end
+
+  resource "Getopt::ArgvFile" do
+    url "https://www.cpan.org/CPAN/authors/id/J/JS/JSTENZEL/Getopt-ArgvFile-1.11.tar.gz"
+    sha256 "3709aa513ce6fd71d1a55a02e34d2f090017d5350a9bd447005653c9b0835b22"
+  end
+
+  resource "Carp::Assert" do
+    url "https://www.cpan.org/CPAN/authors/id/N/NE/NEILB/Carp-Assert-0.21.tar.gz"
+    sha256 "924f8e2b4e3cb3d8b26246b5f9c07cdaa4b8800cef345fa0811d72930d73a54e"
+  end
+
+  resource "File::Slurp" do
+    url "https://www.cpan.org/CPAN/authors/id/U/UR/URI/File-Slurp-9999.19.tar.gz"
+    sha256 "ce29ebe995097ebd6e9bc03284714cdfa0c46dc94f6b14a56980747ea3253643"
+  end
+
+  resource "Parse::Yapp" do
+    url "https://www.cpan.org/CPAN/authors/id/W/WB/WBRASWELL/Parse-Yapp-1.2.tar.gz"
+    sha256 "4bd29f083c261253c6128303dc51bff88d6472c09c3846bd399e21f1f0c3e49a"
+  end
+
+  resource "Parse::Template" do
+    url "https://www.cpan.org/CPAN/authors/id/P/PS/PSCUST/ParseTemplate-3.08.tar.gz"
+    sha256 "3c7734f53999de8351a77cb09631d7a4a0482b6f54bca63d69d5a4eec8686d51"
+  end
+
+  resource "Parse::Lex" do
+    url "https://www.cpan.org/CPAN/authors/id/P/PS/PSCUST/ParseLex-2.21.tar.gz"
+    sha256 "f55f0a7d1e2a6b806a47840c81c16d505c5c76765cb156e5f5fd703159a4492d"
+  end
+
+  resource "Parse::RecDescent" do
+    url "https://www.cpan.org/CPAN/authors/id/J/JT/JTBRAUN/Parse-RecDescent-1.967003.tar.gz"
+    sha256 "d4dac8dad012a7eef271a0ac8ec399f9e3b0b53902644df9c208daef8b4b7f0a"
+  end
+
+  resource "Math::Symbolic" do
+    url "https://www.cpan.org/CPAN/authors/id/S/SM/SMUELLER/Math-Symbolic-0.612.tar.gz"
+    sha256 "a9af979956c4c28683c535b5e5da3cde198c0cac2a11b3c9a129da218b3b9c08"
+  end
+
+  resource "YAML::Tiny" do
+    url "https://www.cpan.org/CPAN/authors/id/E/ET/ETHER/YAML-Tiny-1.70.tar.gz"
+    sha256 "bbce4b52b5eafdb04e3043975a08dbf394d00b7d2c958adb9d03d9f7e9291255"
+  end
+
+  resource "File::Remove" do
+    url "https://www.cpan.org/CPAN/authors/id/S/SH/SHLOMIF/File-Remove-1.57.tar.gz"
+    sha256 "b3becd60165c38786d18285f770b8b06ebffe91797d8c00cc4730614382501ad"
+  end
+
+  resource "inc::Module::Install::DSL" do
+    url "https://www.cpan.org/CPAN/authors/id/E/ET/ETHER/Module-Install-1.18.tar.gz"
+    sha256 "29068ac33502cec959844c206516c09cc4a847cb57327d41015f605153ca645e"
+  end
+
+  resource "Class::Inspector" do
+    url "https://www.cpan.org/CPAN/authors/id/A/AD/ADAMK/Class-Inspector-1.28.tar.gz"
+    sha256 "3ca4b7a3ed1f4cc846c9a3c08f9a6e9ec07a9cbfd92510dea9513db61a923112"
+  end
+
+  resource "File::ShareDir" do
+    url "https://www.cpan.org/CPAN/authors/id/R/RE/REHSACK/File-ShareDir-1.102.tar.gz"
+    sha256 "7c7334b974882587fbd9bc135f6bc04ad197abe99e6f4761953fe9ca88c57411"
+  end
+
+  resource "Template" do
+    url "https://www.cpan.org/CPAN/authors/id/A/AB/ABW/Template-Toolkit-2.26.tar.gz"
+    sha256 "e7e1cf36026f1ef96d8233e18a3fb39e1eafe9109edc639ecf25b20651cd76be"
+  end
+
+  resource "Graph" do
+    url "https://www.cpan.org/CPAN/authors/id/J/JH/JHI/Graph-0.9704.tar.gz"
+    sha256 "325e8eb07be2d09a909e450c13d3a42dcb2a2e96cc3ac780fe4572a0d80b2a25"
+  end
+
+  resource "thrust" do
+    url "https://github.com/thrust/thrust/releases/download/1.8.2/thrust-1.8.2.zip"
+    sha256 "00925daee4d9505b7f33d0ed42ab0de0f9c68c4ffbe2a41e6d04452cdee77b2d"
+  end
+
+  def install
+    ENV.prepend_create_path "PERL5LIB", libexec/"lib/perl5"
+
+    resources.each do |r|
+      r.stage do
+        next if r.name == "thrust"
+        # need to set TT_ACCEPT=y for Template library for non-interactive install
+        perl_flags = "TT_ACCEPT=y" if r.name == "Template"
+        system "perl", "Makefile.PL", "INSTALL_BASE=#{libexec}", perl_flags
+        system "make"
+        system "make", "install"
+      end
+    end
+
+    (include/"thrust").install resource("thrust")
+
+    system "perl", "Makefile.PL", "INSTALL_BASE=#{libexec}", "INSTALLSITESCRIPT=#{bin}"
+
+    # Disable dynamic selection of perl which may cause segfault when an
+    # incompatible perl is picked up.
+    # See, e.g., https://github.com/Homebrew/homebrew-core/issues/4936
+    inreplace "script/libbi", "#!/usr/bin/env perl", "#!/usr/bin/perl"
+
+    system "make"
+    system "make", "install"
+
+    pkgshare.install "Test.bi", "test.conf"
+    bin.env_script_all_files(libexec+"bin", :PERL5LIB => ENV["PERL5LIB"])
+  end
+
+  test do
+    cp Dir[pkgshare/"Test.bi", pkgshare/"test.conf"], testpath
+    system "#{bin}/libbi", "sample", "@test.conf"
+    assert_predicate testpath/"test.nc", :exist?
+  end
+end