QTLTools: add new package (#31881)

1 files changed, 30 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/qtltools/package.py b/var/spack/repos/builtin/packages/qtltools/package.py
new file mode 100644
index 0000000000..8cdee305d1
--- /dev/null
+++ b/var/spack/repos/builtin/packages/qtltools/package.py
@@ -0,0 +1,30 @@
+# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other
+# Spack Project Developers. See the top-level COPYRIGHT file for details.
+#
+# SPDX-License-Identifier: (Apache-2.0 OR MIT)
+
+from spack.package import *
+
+
+class Qtltools(MakefilePackage):
+    """A complete tool set for molecular QTL discovery and analysis."""
+
+    homepage = "https://qtltools.github.io/qtltools/"
+    url = "https://github.com/qtltools/qtltools/archive/refs/tags/1.3.1.tar.gz"
+
+    version("1.3.1", sha256="033b9b61923fd65c4b8b80bc0add321e6fd6fb40de49d15c2dfe6a4d7e60764a")
+    version("1.3", sha256="032020d7e038eac4ec01701343a887bced7cca356cbd24b3d5bbadf83686faeb")
+
+    depends_on("boost +pic +iostreams +program_options")
+    depends_on("gsl")
+    depends_on("htslib ~libcurl ~libdeflate")
+    depends_on("r +rmath")
+
+    def edit(self, spec, prefix):
+        makefile = FileFilter("Makefile")
+        makefile.filter("BOOST_INC=.*", "BOOST_INC=" + self.spec["boost"].prefix.include)
+        makefile.filter("BOOST_LIB=.*", "BOOST_LIB=" + self.spec["boost"].prefix.lib)
+        makefile.filter("RMATH_INC=.*", "RMATH_INC=" + self.spec["r"].prefix.include)
+        makefile.filter("RMATH_LIB=.*", "RMATH_LIB=" + self.spec["r"].prefix.rlib)
+        makefile.filter("HTSLD_INC=.*", "HTSLD_INC=" + self.spec["htslib"].prefix.include)
+        makefile.filter("HTSLD_LIB=.*", "HTSLD_LIB=" + self.spec["htslib"].prefix.lib)