freebayes: add v1.3.5, move to MesonPackage (#23772)

1 files changed, 28 insertions, 2 deletions

diff --git a/var/spack/repos/builtin/packages/freebayes/package.py b/var/spack/repos/builtin/packages/freebayes/package.py
index 0f35c5609e..471554e32f 100644
--- a/var/spack/repos/builtin/packages/freebayes/package.py
+++ b/var/spack/repos/builtin/packages/freebayes/package.py
@@ -6,27 +6,53 @@
 from spack import *
 
 
-class Freebayes(MakefilePackage):
+class Freebayes(MesonPackage):
     """Bayesian haplotype-based genetic polymorphism discovery and
        genotyping."""
 
     homepage = "https://github.com/ekg/freebayes"
+    url      = "https://github.com/freebayes/freebayes/releases/download/v1.3.5/freebayes-1.3.5-src.tar.gz"
     git      = "https://github.com/ekg/freebayes.git"
 
+    version('1.3.5', sha256='7e2635690e916ed85cec36b3263e6e5357413a4f2bf3035362d9749335e8a696')
     version('1.1.0', commit='39e5e4bcb801556141f2da36aba1df5c5c60701f',
-            submodules=True)
+            submodules=True, deprecated=True)
 
     depends_on('cmake', type='build')
     depends_on('zlib')
 
+    # Deps for @1.3.5 and beyond
+    depends_on('ninja', type='build', when='@1.3.5:')
+    depends_on('htslib', when='@1.3.5:')
+    depends_on('zlib', when='@1.3.5:')
+    depends_on('xz', when='@1.3.5:')
+    depends_on('parallel', when='@1.3.5:')
+    depends_on('vcftools', when='@1.3.5:')
+    depends_on('bc', when='@1.3.5:')
+    depends_on('samtools', when='@1.3.5:')
+
     parallel = False
 
+    @when('@:1.1.0')
     def edit(self, spec, prefix):
         makefile = FileFilter('Makefile')
         b = prefix.bin
         makefile.filter('cp bin/freebayes bin/bamleftalign /usr/local/bin/',
                         'cp bin/freebayes bin/bamleftalign {0}'.format(b))
 
+    @when('@:1.1.0')
     @run_before('install')
     def make_prefix_dot_bin(self):
         mkdir(prefix.bin)
+
+    @when('@:1.1.0')
+    def meson(self, spec, prefix):
+        pass
+
+    @when('@:1.1.0')
+    def build(self, spec, prefix):
+        make()
+
+    @when('@:1.1.0')
+    def install(self, spec, prefix):
+        make('install')